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1

Quantitative, non-invasive imaging of radiation-induced DNA double strand breaks in vivo  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Quantitative, non-invasive imaging of radiation-induced DNA double strand breaks in vivo Quantitative, non-invasive imaging of radiation-induced DNA double strand breaks in vivo Wenrong Li 1, , Fang Li 1 , Qian Huang 1 , Jingping Shen 1 , Frank Wolf 1 , Yujun He 1 , Xinjian Liu 1 , Y. Angela Hu 1 , Joel. S. Bedford 5 , and Chuan-Yuan Li 1,2,* Departments of 1 Radiation Oncology, 2 Pharmacology, University of Colorado School of Medicine, Aurora, Colorado, USA; 3 Department of Environmental and Radiological Health Sciences, Colorado State University, Fort Collins, CO, USA DNA double strand breaks are a major form of DNA damage and a key mechanism through which radiotherapy and some chemotherapeutic agents kill cancer cells. Despite its importance, measuring DNA double strand breaks is still a tedious task that is normally carried out by gel electrophoresis or immunofluorescence staining. Here we report a novel approach to image and

2

ASSESSMENT OF INDIVIDUAL VARIATION IN DNA DOUBLE-STRAND BREAK REPAIR CAPACITY IN HUMAN DIPLOID FIBROBLASTS  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

ASSESSMENT OF INDIVIDUAL VARIATION IN DNA DOUBLE-STRAND ASSESSMENT OF INDIVIDUAL VARIATION IN DNA DOUBLE-STRAND BREAK REPAIR CAPACITY IN HUMAN DIPLOID FIBROBLASTS Paul F. Wilson, John M. Hinz, Peter B. Nham, Salustra S. Urbin, Cynthia B. Thomas, Irene M. Jones, and Larry H. Thompson Biosciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA The induction of bi-stranded clustered DNA damage (BCD), which includes direct DNA double-strand breaks (DSBs), is a hallmark of ionizing radiation (IR) exposure. Incorrectly repaired DSBs can cause chromosomal rearrangements and an increased risk of genomic instability and cancer. Because there is polymorphic variation in DNA repair genes and much of this variation is predicted to have a functional impact, healthy people likely vary in their capacity to repair DSBs and other BCD. This project

3

The Role of DNA double-strand break repair in cellular response to low  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA double-strand break repair in cellular response to low DNA double-strand break repair in cellular response to low dose radiation exposure. David J. Chen Division of Molecular Radiation Biology, Department of Radiation Oncology, University of Texas Southwestern Medical Center, Dallas TX 75390 It has been assumed that molecular pathways that involved in the biological response for low dose of radiation should be similar to those for high dose radiation in general. The low dose-rate effect and DNA double-strand break repair are inextricably linked in mammalian cells. It has been reported that mammalian mutant cells deficient in nonhomologous end join (NHEJ) pathway have little or no cellular recovery when expose to low-dose-rate radiation. Recently, it has also been reported that cells deficient in

4

A Key Step in Repairing DNA Double-Strand Breaks | Advanced Photon Source  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

X-ray Rainbow X-ray Rainbow An Insulating Breakthrough Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed A Key Step in Repairing DNA Double-Strand Breaks JANUARY 10, 2007 Bookmark and Share The atomic structure of the protein 53BP1 identified by Mayo researchers. (Courtesy: Mayo Clinic) A team of Mayo Clinic researchers has uncovered a key step in the molecular pathway of repairing DNA double-strand breaks. The studies were carried out using the 19-ID beamline (SBC-CAT) at the Advanced Photon Source (APS, Argonne) and the X12-C beamline at the National Synchrotron Light Source (NSLS, Brookhaven National Laboratory). Both the APS and the NSLS are funded by the U.S. Department of Energy's Office of Basic Energy

5

Telomeres and DNA double-strand breaks: ever the twain shall S. M. Baileya,* and M. N. Cornforthb  

E-Print Network [OSTI]

between the naturally occurring DNA double-strand breaks (DSBs) found at chromosome ends (i.e., telomeres Collins, CO 80523-1618 (USA), Fax: +19704917742, e-mail: sbailey@colostate.edu b Department of Radiation on their inability to rejoin with broken chromosome ends produced by radiation. Today, we recognize two essential

6

Repair of Site-Specific DNA Double-Strand Breaks in Barley Occurs via Diverse Pathways Primarily Involving the Sister Chromatid  

Science Journals Connector (OSTI)

...research-article RESEARCH ARTICLES Repair of Site-Specific DNA Double-Strand...various double-strand break repair pathways in the monocot plant...0.307_win32 with UPARSE pipeline (Edgar, 2013). The three...polymorphisms indicative of distinct repair mechanisms. SCE and Mitotic...

Giang T.H. Vu; Hieu X. Cao; Koichi Watanabe; Goetz Hensel; Frank R. Blattner; Jochen Kumlehn; Ingo Schubert

2014-05-29T23:59:59.000Z

7

Probability of double-strand breaks in genome-sized DNA by {gamma}-ray decreases markedly as the DNA concentration increases  

SciTech Connect (OSTI)

By use of the single-molecule observation, we count the number of DNA double-strand breaks caused by {gamma}-ray irradiation with genome-sized DNA molecules (166 kbp). We find that P{sub 1}, the number of double-strand breaks (DSBs) per base pair per unit Gy, is nearly inversely proportional to the DNA concentration above a certain threshold DNA concentration. The inverse relationship implies that the total number of DSBs remains essentially constant. We give a theoretical interpretation of our experimental results in terms of attack of reactive species upon DNA molecules, indicating the significance of the characteristics of genome-sized giant DNA as semiflexible polymers for the efficiency of DSBs.

Shimobayashi, Shunsuke F. [Department of Physics, Graduate School of Science, Kyoto University, Kyoto 606-8502 (Japan); Iwaki, Takafumi [Fukui Institute for Fundamental Chemistry, Kyoto University, Kyoto 606-8103 (Japan); Mori, Toshiaki [Radiation Research Center, Osaka Prefecture University, Sakai 599-8570 (Japan); Yoshikawa, Kenichi [Department of Physics, Graduate School of Science, Kyoto University, Kyoto 606-8502 (Japan); Faculty of Life and Medical Sciences, Doshisha University, Kyoto 610-0394 (Japan)

2013-05-07T23:59:59.000Z

8

Epigenetic Modifications in Double-Strand Break DNA Damage Signaling and Repair  

Science Journals Connector (OSTI)

...Focus 10 14 31 DNA Damage and Repair in Translational Oncology...investigators, DNA damage and repair has been a major focus of anticancer...Plummer R . Perspective on the pipeline of drugs being developed with...break DNA damage signaling and repair. Clin Cancer Res 2010;16...

Dorine Rossetto; Andrew W. Truman; Stephen J. Kron; and Jacques Côté

2010-09-15T23:59:59.000Z

9

Examining the regulation of DNA end-processing at telomeres and double-strand breaks  

E-Print Network [OSTI]

do not exhibit synthetic growth or DNA damage responsedo not exhibit synthetic growth or DNA damage responsedo not exhibit synthetic growth or DNA damage response

Ballew, Bari Jane

2011-01-01T23:59:59.000Z

10

Human Polynucleotide Kinase Participates in Repair of DNA Double-Strand Breaks by Nonhomologous End Joining but not Homologous Recombination  

Science Journals Connector (OSTI)

...for the repair of topoisomerase I-mediated DNA lesions. DNA Repair (Amst) 2003;2:1087-100. 42 El-Khamisy SF, Saifi GM, Weinfeld M, et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1...

Feridoun Karimi-Busheri; Aghdass Rasouli-Nia; Joan Allalunis-Turner; Michael Weinfeld

2007-07-15T23:59:59.000Z

11

Induction of DNA Double-Strand Breaks and Cellular Migration Through Bystander Effects in Cells Irradiated With the Slit-Type Microplanar Beam of the Spring-8 Synchrotron  

SciTech Connect (OSTI)

Purpose: To determine whether glioma cells irradiated with a microplanar X-ray beam exert bystander effects. Methods and Materials: Microplanar beam irradiation of glioma cells in vitro was done using the SPring-8 synchrotron radiation facility. The amount of DNA double-strand breaks (dsbs) was measured by the fluorescence intensity of phosphorylated H2AX or the number of 53BP1 foci. The dose distribution in a cell population exposed to a single microplanar beam was determined by the amount of phosphorylated H2AX-positive cells. Bystander effects were determined by counting the number of 53BP1 foci in nonirradiated cells treated with conditioned medium from cultures of irradiated cells. Results: More DNA dsbs were detected in cells adjacent to an area irradiated by the single beam than in cells in distant, nonirradiated areas as a result of bystander effects caused by scattered X-rays and DNA dsbs. In support of this, more 53BP1 foci were observed in nonirradiated, conditioned medium-treated cells than in control cells (i.e., cells not treated with irradiation or conditioned medium). These results suggest that DNA dsbs were induced in nonirradiated cells by soluble factors in the culture medium. In addition, we observed cellular migration into areas irradiated with peak doses, suggesting that irradiated cells send signals that cause nonirradiated cells to migrate toward damaged cells. Conclusions: Bystander effects are produced by factors secreted as a result of slit-type microplanar X-ray beam irradiation.

Kashino, Genro [Research Reactor Institute, Kyoto University, Osaka (Japan)], E-mail: kashino@rri.kyoto-u.ac.jp; Kondoh, Takeshi [Department of Neurosurgery, Graduate School of Medicine, Kobe University, Kobe (Japan); Nariyama, Nobuteru; Umetani, Keiji; Ohigashi, Takuji [Japan Synchrotron Radiation Research Institute, Hyogo (Japan); Shinohara, Kunio [Japan Synchrotron Radiation Research Institute, Hyogo (Japan); Advanced Research Institute for Science and Engineering, Waseda University, Tokyo (Japan); Kurihara, Ai; Fukumoto, Manabu [Department of Pathology, Institute of Development, Aging and Cancer, Tohoku University, Sendai (Japan); Tanaka, Hiroki; Maruhashi, Akira; Suzuki, Minoru; Kinashi, Yuko; Liu Yong; Masunaga, Shin-ichiro; Watanabe, Masami; Ono, Koji [Research Reactor Institute, Kyoto University, Osaka (Japan)

2009-05-01T23:59:59.000Z

12

PAXX, a paralog of XRCC4 and XLF, interacts with Ku to promote DNA double-strand break repair  

E-Print Network [OSTI]

regions of PAXX1-204 and PAXXV199A/F201A were amplified from the vectors by PCR and cloned into the pcDNA3.1(-) vector (a gift from Dr. V. Bolanos-Garcia) together with GFP or FLAG tags using In-Fusion (Clontech). Vectors were sequenced by the DNA... -treated or treated for 1 hour with 300 µM phleomycin to induce large numbers of DSBs, before being harvested either at this point or after an additional 1-hour recovery period in phleomycin-free medium after three PBS washes. Cells were washed twice in ice-cold PBS...

Ochi, Takashi; Blackford, Andrew N.; Coates, Julia; Jhujh, Satpal; Mehmood, Shahid; Tamura, Naoka; Travers, Jon; Wu, Qian; Draviam, Viji M.; Robinson, Carol V.; Blundell, Tom L.; Jackson, Stephen P.

2015-01-09T23:59:59.000Z

13

Genetics of x-ray induced double strand break repair in saccharomyces cerevisiae  

SciTech Connect (OSTI)

The possible fates of x-ray-induced double-strand breaks in Saccharomyces cerevisiae were examined. One possible pathway which breaks can follow, the repair pathway, was studied by assaying strains with mutations in the RAD51, RAD54, and RAD57 loci for double-strand break repair. In order of increasing radiation sensitivity one finds: rad57-1(23/sup 0/)> rad51-1(30/sup 0/)> rad54-3(36/sup 0/). At 36/sup 0/, rad54-3 cells cannot repair double-strand breaks, while 23/sup 0/, they can. Strains with the rad57-1 mutation can rejoin broken chromosomes at both temperatures. However, the low survival at 36/sup 0/ shows that the assay is not distinguishing large DNA fragments which allow cell survival from those which cause cell death. A rad51-1 strain could also rejoin broken chromosomes, and was thus capable of incomplete repair. The data can be explained with the hypothesis that rad54-3 cells are blocked in an early step of repair, while rad51-1 and rad57-1 strains are blocked in a later step of repair. The fate of double-strand breaks when they are left unrepaired was investigated with the rad54-3 mutation. If breaks are prevented from entering the RAD54 repair pathway they become uncommitted lesions. These lesions are repaired slower than the original breaks. One possible fate for an uncommitted lesion is conversion into a fixed lesion, which is likely to be an unrepairable or misrepaired double-strand break. The presence of protein synthesis after irradiation increases the probability that a break will enter the repair pathway. Evidence shows that increased probability of repair results from enhanced synthesis of repair proteins shortly after radiation. (ERB)

Budd, M.E.

1982-07-01T23:59:59.000Z

14

Induction and Rejoining of DNA Double Strand Breaks Assessed by H2AX Phosphorylation in Melanoma Cells Irradiated with Proton and Lithium Beams  

SciTech Connect (OSTI)

Purpose: The aim of this study was to evaluate the induction and rejoining of DNA double strand breaks (DSBs) in melanoma cells exposed to low and high linear energy transfer (LET) radiation. Methods and Materials: DSBs and survival were determined as a function of dose in melanoma cells (B16-F0) irradiated with monoenergetic proton and lithium beams and with a gamma source. Survival curves were obtained by clonogenic assay and fitted to the linear-quadratic model. DSBs were evaluated by the detection of phosphorylated histone H2AX ({gamma}H2AX) foci at 30 min and 6 h post-irradiation. Results: Survival curves showed the increasing effectiveness of radiation as a function of LET. {gamma}H2AX labeling showed an increase in the number of foci vs. dose for all the radiations evaluated. A decrease in the number of foci was found at 6 h post-irradiation for low LET radiation, revealing the repair capacity of DSBs. An increase in the size of {gamma}H2AX foci in cells irradiated with lithium beams was found, as compared with gamma and proton irradiations, which could be attributed to the clusters of DSBs induced by high LET radiation. Foci size increased at 6 h post-irradiation for lithium and proton irradiations in relation with persistent DSBs, showing a correlation with surviving fraction. Conclusions: Our results showed the response of B16-F0 cells to charged particle beams evaluated by the detection of {gamma}H2AX foci. We conclude that {gamma}H2AX foci size is an accurate parameter to correlate the rejoining of DSBs induced by different LET radiations and radiosensitivity.

Ibanez, Irene L. [Comision Nacional de Energia Atomica, San Martin (Argentina); Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Bracalente, Candelaria [Comision Nacional de Energia Atomica, San Martin (Argentina); Molinari, Beatriz L. [Comision Nacional de Energia Atomica, San Martin (Argentina); Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Palmieri, Monica A. [Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires (Argentina); Policastro, Lucia [Comision Nacional de Energia Atomica, San Martin (Argentina); Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Kreiner, Andres J. [Comision Nacional de Energia Atomica, San Martin (Argentina); Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Escuela de Ciencia y Tecnologia, Universidad Nacional de San Martin (Argentina); Burlon, Alejandro A. [Comision Nacional de Energia Atomica, San Martin (Argentina); Escuela de Ciencia y Tecnologia, Universidad Nacional de San Martin (Argentina); Valda, Alejandro [Escuela de Ciencia y Tecnologia, Universidad Nacional de San Martin (Argentina); Navalesi, Daniela [Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires (Argentina); Davidson, Jorge; Davidson, Miguel [Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Vazquez, Monica; Ozafran, Mabel [Comision Nacional de Energia Atomica, San Martin (Argentina); Duran, Hebe [Comision Nacional de Energia Atomica, San Martin (Argentina); Consejo Nacional de Investigaciones Cientificas y Tecnicas, Buenos Aires (Argentina); Escuela de Ciencia y Tecnologia, Universidad Nacional de San Martin (Argentina)], E-mail: hduran@cnea.gov.ar

2009-07-15T23:59:59.000Z

15

Gene Expression Pathways Activated and Repair of DNA of Double Strand  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Pathways Activated and Repair of DNA of Double Strand Pathways Activated and Repair of DNA of Double Strand Breaks (DSBs) Following Low Dose Ionizing Radiation in Human Bronchial Epithelial Cells (HBECs) With and Without Defined Premalignant Oncogenic Changes John Minna University of Texas Southwestern Medical Center at Dallas Abstract We want to determine the effect of low dose ionizing radiation on the molecular progression of lung epithelial cells towards lung cancer. Our endpoints are focused on specific molecular and cellular changes known to be associated with lung cancer development and quantitating those changes as a function of low dose ionizing radiation. We use immortalized human bronchial epithelial cells (HBECs) developed from >40 individuals (including those from current, former, and never smokers, males, females,

16

Replication protein A and g-H2AX foci assembly is triggered by cellular response to DNA double-strand breaks  

E-Print Network [OSTI]

pathway that removes the oxidized base lesions from the genomic DNA [6]. Evidence for the stimulation

17

Fanconi Anemia FANCG Protein in Mitigating Radiation- and Enzyme-Induced DNA Double-Strand Breaks by Homologous Recombination in Vertebrate Cells  

Science Journals Connector (OSTI)

...Protein in Mitigating Radiation- and Enzyme-Induced...Okayama 701-0192, Japan. Phone: 81-86-462-1111...exhibit increased MMC and radiation-induced chromosome...Okayama 701-0192, Japan. | Journal Article...pharmacology DNA drug effects radiation effects DNA Damage DNA...

Kazuhiko Yamamoto; Masamichi Ishiai; Nobuko Matsushita; Hiroshi Arakawa; Jane E. Lamerdin; Jean-Marie Buerstedde; Mitsune Tanimoto; Mine Harada; Larry H. Thompson; Minoru Takata

2003-08-01T23:59:59.000Z

18

Nej1 recruits the Srs2 helicase to DNA double-strand breaks and supports repair by a single-strand annealing-like mechanism  

Science Journals Connector (OSTI)

...strain and its derivatives. Relative to input DNA, galactose-induction in the SRS2-13XMYC WT strain...performed as described in ref. 52. Input DNA was recovered before immunoprecipitation...Genetic screens and selections for cell and nuclear fusion mutants . Methods Enzymol 194 : 774...

Sidney D. Carter; Dana Vigašová; Jiang Chen; Miroslav Chovanec; Stefan U. Åström

2009-01-01T23:59:59.000Z

19

RAD-51-Dependent and -Independent Roles of a Caenorhabditis elegans BRCA2-Related Protein during DNA Double-Strand Break Repair  

Science Journals Connector (OSTI)

...previously described (5). To test pair-wise interactions in yeast cells, Gal4 DNA...four BRCs) (11, 21, 41, 49). Pair-wise alignment of the single BRC of T07E3...In addition, we thank Juliet Reid, Alison Schuldt, John Diffley, Jesper Svejstrup...

Julie S. Martin; Nicole Winkelmann; Mark I. R. Petalcorin; Michael J. McIlwraith; Simon J. Boulton

2005-04-01T23:59:59.000Z

20

Spin transport and spin polarization properties in double-stranded DNA  

SciTech Connect (OSTI)

We study the spin-dependent electron transport through a double-stranded DNA (dsDNA) using the Bogoliubov-de Gennes equations and non-equilibrium Green's function method. We calculate the spin-dependent electron conductance and spin-polarization for different lengths, helix angles, twist angles of dsDNA, the environment-induced dephasing factors, and hopping integral. It is shown that the conductance decreases by increasing the length and dephasing factor. Also, we show that the spin-polarization depends on the helical symmetry and the length of DNA. It is shown that the double-stranded DNA can act as a perfect spin filter. Finally, we show that the sign of spin polarization can be inverted from +1 (?1) to ?1 (+1) for some values of hopping integral.

Simchi, Hamidreza, E-mail: simchi@iust.ac.ir [Department of Physics, Iran University of Science and Technology, Narrmak, Tehran 16844 (Iran, Islamic Republic of); Semiconductor Technology Center, Tehran (Iran, Islamic Republic of); Esmaeilzadeh, Mahdi, E-mail: mahdi@iust.ac.ir; Mazidabadi, Hossein [Department of Physics, Iran University of Science and Technology, Narrmak, Tehran 16844 (Iran, Islamic Republic of)

2013-11-21T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


21

Creating Directed Double-strand Breaks with the Ref Protein: A Novel Rec A-Dependent Nuclease from Bacteriophage P1  

SciTech Connect (OSTI)

The bacteriophage P1-encoded Ref protein enhances RecA-dependent recombination in vivo by an unknown mechanism. We demonstrate that Ref is a new type of enzyme; that is, a RecA-dependent nuclease. Ref binds to ss- and dsDNA but does not cleave any DNA substrate until RecA protein and ATP are added to form RecA nucleoprotein filaments. Ref cleaves only where RecA protein is bound. RecA functions as a co-nuclease in the Ref/RecA system. Ref nuclease activity can be limited to the targeted strands of short RecA-containing D-loops. The result is a uniquely programmable endonuclease activity, producing targeted double-strand breaks at any chosen DNA sequence in an oligonucleotide-directed fashion. We present evidence indicating that cleavage occurs in the RecA filament groove. The structure of the Ref protein has been determined to 1.4 {angstrom} resolution. The core structure, consisting of residues 77-186, consists of a central 2-stranded {beta}-hairpin that is sandwiched between several {alpha}-helical and extended loop elements. The N-terminal 76 amino acid residues are disordered; this flexible region is required for optimal activity. The overall structure of Ref, including several putative active site histidine residues, defines a new subclass of HNH-family nucleases. We propose that enhancement of recombination by Ref reflects the introduction of directed, recombinogenic double-strand breaks.

Gruenig, Marielle C.; Lu, Duo; Won, Sang Joon; Dulberger, Charles L.; Manlick, Angela J.; Keck, James L.; Cox, Michael M. (UW)

2012-03-16T23:59:59.000Z

22

Proximity-induced superconductivity effect in a double-stranded DNA  

SciTech Connect (OSTI)

We study the proximity-induced superconductivity effect in a double-stranded DNA by solving the Bogoliubov-de Gennes equations and taking into account the effect of thermal fluctuations of the twist angle between neighboring base pairs. We show that the electron conductance is spin-dependent and the conductance of spin up (down) increases (decreases) due to the spin-orbit coupling (SOC). It is found that, for T?

Simchi, Hamidreza, E-mail: simchi@iust.ac.ir [Department of Physics, Iran University of Science and Technology, Narrmak, Tehran 16844 (Iran, Islamic Republic of); Semiconductor Technology Center, Tehran (Iran, Islamic Republic of); Esmaeilzadeh, Mahdi, E-mail: mahdi@iust.ac.ir; Mazidabadi, Hossein [Department of Physics, Iran University of Science and Technology, Narrmak, Tehran 16844 (Iran, Islamic Republic of)

2014-02-07T23:59:59.000Z

23

Increased apoptosis and DNA double-strand breaks in the embryonic mouse brain in response to very low-dose X-rays but not 50 Hz magnetic fields  

Science Journals Connector (OSTI)

...micronucleus formation, mutation induction and single-strand break...generated using a function generator and power amplifier connected...Assuming the same level of DSB induction, we conclude that the difference...low-dose radiation To assess the induction of 53BP1 foci after low-dose...

2014-01-01T23:59:59.000Z

24

Evidence for the Involvement of Double-Strand Breaks in Heat-Induced Cell Killing  

Science Journals Connector (OSTI)

...between thermal tolerance for heat killing and heat-induced loss of DNA polymerase b activity...cells with different cell cycle distributions. Error bars, SD. Fig. 5...between thermotolerance and heat-induced H2AX foci formation...

Akihisa Takahashi; Hideki Matsumoto; Kosuke Nagayama; Mutsuko Kitano; Sayako Hirose; Hidenori Tanaka; Eiichiro Mori; Nobuhiro Yamakawa; Jun-ichi Yasumoto; Kazue Yuki; Ken Ohnishi; and Takeo Ohnishi

2004-12-15T23:59:59.000Z

25

Intense photoluminescence from dried double-stranded DNA and single-walled carbon nanotube hybrid  

SciTech Connect (OSTI)

Semiconducting single-walled carbon nanotubes (SWNTs) show near-infrared photoluminescence (PL) when they are individually isolated. This was an obstacle to use photonic properties of SWNTs on a solid surface. We show that SWNTs wrapped with DNA maintain intense PL under the dry conditions. SWNTs are well isolated individually by DNA even when the DNA-SWNT hybrids are agglomerated. This finding opens up application of SWNTs to photonic devices.

Ito, M.; Kobayashi, T.; Ito, Y.; Hayashida, T.; Nii, D.; Umemura, K.; Homma, Y. [Department of Physics, Tokyo University of Science, Tokyo 162-8601 (Japan)

2014-01-27T23:59:59.000Z

26

Dyes designed for high sensitivity detection of double-stranded DNA  

DOE Patents [OSTI]

Novel fluorescent dyes are provided, characterized by having a fluorophore joined to a cationic chain. The dyes are found to provide for high enhancement upon binding to nucleic acid and have strong binding affinities to the nucleic acid, as compared to the fluorophore without the polycationic chain. The dyes find use in detection of dsDNA in gel electrophoresis and solution at substantially higher sensitivities using substantially less dye.

Glazer, Alexander N. (Orinda, CA); Benson, Scott C. (Oakland, CA)

2000-01-01T23:59:59.000Z

27

The DNA Damage Response Signaling Cascade Regulates Proliferation of the Phytopathogenic Fungus Ustilago maydis in Planta  

Science Journals Connector (OSTI)

...and Sanchez, 2004) in a broad range of eukaryotes, including U. maydis...double-strand breaks in DNA; and ionizing radiation (IR), which generates double-strand...were irradiated at the indicated dose after being spotted. The spots...

Carmen de Sena-Tomás; Alfonso Fernández-Álvarez; William K. Holloman; José Pérez-Martín

2011-04-08T23:59:59.000Z

28

Unzipping Kinetics of Double-Stranded DNA in a Nanopore Alexis F. Sauer-Budge,1,2  

E-Print Network [OSTI]

- technological applications [11,12]. To explore strand separation in a nanopore we designed two synthetic DNA

29

The BLM Helicase Is Necessary for Normal DNA Double-Strand Break Repair  

Science Journals Connector (OSTI)

...control, corrected BS, BS, and AT cells in a DSB...EcoRI-cut CIP pUC18 in nuclear extracts are shown. Part...DSB repair assays. The costs of publication of this...abbreviations used are: BS, Blooms syndrome; AT...of linearized supF20 by nuclear extracts from control...

Gregory Langland; James Elliott; Yuling Li; Jenette Creaney; Kathleen Dixon; and Joanna Groden

2002-05-15T23:59:59.000Z

30

Induction of linear tracks of DNA double-strand breaks by -particle irradiation of  

E-Print Network [OSTI]

eukaryotic cells by exposing the cells to particles from a small Americium source (Box 1). Each particle) EQUIPMENT Americium (Am-241) source (SupplementaryMethods and SupplementaryFigs.1­3 online) Polyester film

Cai, Long

31

A MICROBEAM STUDY OF DNA DOUBLE-STRAND BREAKS IN BYSTANDER PRIMARY HUMAN FIBROBLASTS  

E-Print Network [OSTI]

-or-nothing manner(7) . Bystander cells exhibit a variety of characteristics of IR-induced genomic instability

32

Investigating Deinococcus radiodurans RecA Protein Filament Formation on Double-Stranded DNA by a Real-Time  

E-Print Network [OSTI]

to desiccation.2 Many hypotheses have been proposed to explain the high- efficiency repair, including a ringlike condensed chromosome structure that could restrict fragment DNA diffusion,3-5 a high Mn2+ concentration: With the aid of an efficient, precise, and almost error-free DNA repair system, Deinococcus radiodurans can

Cox, Michael M.

33

Specific and Efficient Binding of Xeroderma Pigmentosum Complementation Group A to Double-Strand/Single-Strand DNA Junctions with 3‘- and/or 5‘-ssDNA Branches  

Science Journals Connector (OSTI)

11.?Rademakers, S., Volker, M., Hoogstraten, D., Nigg, A. L., Mone, M. J., Van Zeeland, A. A., Hoeijmakers, J. H., Houtsmuller, A. B., and Vermeulen, W. (2003) Xeroderma pigmentosum group A protein loads as a separate factor onto DNA lesions, Mol. ... Rademakers, Suzanne; Volker, Marcel; Hoogstraten, Deborah; Nigg, Alex L.; Mone, Martijn J.; van Zeeland, Albert A.; Hoeijmakers, Jan H. J.; Houtsmuller, Adriaan B.; Vermeulen, Wim ...

Zhengguan Yang; Marina Roginskaya; Laureen C. Colis; Ashis K. Basu; Steven M. Shell; Yiyong Liu; Phillip R. Musich; Constance M. Harris; Thomas M. Harris; Yue Zou

2006-12-19T23:59:59.000Z

34

DNA double-strand breaks promote methylation of histone H3 on lysine 9 and transient formation of repressive chromatin  

Science Journals Connector (OSTI)

...7456 ): 50 – 54 . 11 Price BD D’Andrea AD ( 2013...Y Gursoy-Yuzugullu O Price BD ( 2012 ) The...Apochromat/1.25-N.A. oil objective (Leica...Plan APO 63×/1.4 oil M27 lens (magnification...proteins were released by heating for 5 min with 2× sample...

Marina K. Ayrapetov; Ozge Gursoy-Yuzugullu; Chang Xu; Ye Xu; Brendan D. Price

2014-01-01T23:59:59.000Z

35

Functional role of MRE11 in the repair of particulate chromium(VI)-induced DNA double strand breaks  

Science Journals Connector (OSTI)

...mast cells can behave alternatively as dangerous promoters, innocent bystanders, or...Italo Monzino, the Italian Ministry of Health, and Associazione Italiana Ricerca sul...mast cells can behave alternatively as dangerous promoters, innocent bystanders, or...

Hong Xie; Sandra S. Wise; Seme Dako; Spiros Katsifis; and John P. Wise

2006-04-15T23:59:59.000Z

36

Lattice ribbons: A model of double-stranded polymers  

Science Journals Connector (OSTI)

We introduce a discrete ribbon model for double-stranded polymers (such as duplex DNA) where the ribbon is constrained to lie on the simple cubic lattice Z3. The ribbon is made up of a sequence of plaquettes and can either be open or closed. We investigate the growth of the number of ribbons as a function of the number of plaquettes and use Monte Carlo methods to estimate the dimensions of the ribbon, the writhe of the backbone and, in the case of orientable closed ribbons, the linking number of the two boundary curves.

E.J. Janse van Rensburg; E. Orlandini; D.W Sumners; M.C. Tesi; S.G. Whittington

1994-12-01T23:59:59.000Z

37

Synthesis of DNA  

DOE Patents [OSTI]

A method of synthesizing a desired double-stranded DNA of a predetermined length and of a predetermined sequence. Preselected sequence segments that will complete the desired double-stranded DNA are determined. Preselected segment sequences of DNA that will be used to complete the desired double-stranded DNA are provided. The preselected segment sequences of DNA are assembled to produce the desired double-stranded DNA.

Mariella, Jr., Raymond P. (Danville, CA)

2008-11-18T23:59:59.000Z

38

The Sensitivity of MCF10A Breast Epithelial Cells to Alkylating Drugs is Enhanced by the Inhibition of O6-Methylguanine-DNA Methyltransferase Transcription with a Synthetic Double Strand DNA Oligonucleotide  

Science Journals Connector (OSTI)

Cytoxicity of alkylating chemotherapeutic drugs is affected by the cellular content of the enzyme O6-methylguanine-DNA methyl transferase (MGMT). Since high levels ... of the enzyme confer the efficient repair of...

Laura Mariani; Antonella Piccirilli; Lorenzo Citti…

2002-06-01T23:59:59.000Z

39

Identification, Exploitation and Manipulation of BRCA1-Dependent DNA Double-Strand Break and Interstrand Crosslink Repair in Breast and Ovarian Cancer Therapy  

E-Print Network [OSTI]

Expression of functional breast cancer susceptibility gene 1 (BRCA1) in human cancers is associated with resistance to platinum-based chemotherapeutics and poly(ADP-ribose) polymerase (PARP) inhibitors. BRCA1 is a nuclear phosphoprotein with broad...

Stecklein, Shane Richard

2012-05-12T23:59:59.000Z

40

Synergistic Anticancer Activity of Arsenic Trioxide with Erlotinib Is Based on Inhibition of EGFR-Mediated DNA Double-Strand Break Repair  

Science Journals Connector (OSTI)

...erlotinib (B). C, the diagrams on the left show viability...molecular mechanisms. Materials and Methods Chemicals...camera. Subsequent image handling was carried out in Adobe...in vivo. A schematic diagram illustrating the molecular...Administrative, technical, or material support (i.e...

Kushtrim Kryeziu; Ute Jungwirth; Mir Alireza Hoda; Franziska Ferk; Siegfried Knasmüller; Claudia Karnthaler-Benbakka; Christian R. Kowol; Walter Berger; and Petra Heffeter

2013-06-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


41

Proteogenomic Analysis Reveals Unanticipated Adaptations of Colorectal Tumor Cells to Deficiencies in DNA Mismatch Repair  

Science Journals Connector (OSTI)

...related double-strand break repair protein NBN, which are constituents...decreased DNA synthesis and repair in MMR- cells (Fig. 4...application of our newly developed pipeline for the detection of variant...in DNA and RNA synthesis and repair. The driving proteins behind...

Patrick J. Halvey; Xiaojing Wang; Jing Wang; Ajaz A. Bhat; Punita Dhawan; Ming Li; Bing Zhang; Daniel C. Liebler; and Robbert J.C. Slebos

2014-01-01T23:59:59.000Z

42

MDC1 Cleavage by Caspase-3: A Novel Mechanism for Inactivating the DNA Damage Response during Apoptosis  

Science Journals Connector (OSTI)

...double-strand break repair and may be a novel therapeutic...commonly used or are in the pipeline, yet virtually all pancreatic...these lines, the DNA repair pathway is an attractive...timely drug development pipeline. Therefore, the model...components of the DNA repair complex (31, 33...

Stéphanie Solier and Yves Pommier

2011-02-01T23:59:59.000Z

43

Chemically accurate coarse graining of double-stranded DNA  

Science Journals Connector (OSTI)

...Phys Chem B 112, 9135 ZZQQhy9145. 8. Chen, A. A & Pappu, R. V. (2007) Parameters of monovalent ions in the amber-99...Chem B 111, 11884 ZZQQhy11887. 14 9. Chen, A. A & Pappu, R. V. (2007) Quantitative characterization of ion pairing...

Alexey Savelyev; Garegin A. Papoian

2010-01-01T23:59:59.000Z

44

Live Cell Imaging and in situ analysis of cellular responses to DNA doublestrand  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Live Cell Imaging and in situ analysis of cellular responses to DNA double- Live Cell Imaging and in situ analysis of cellular responses to DNA double- strand breaks in mammalian cells. David J. Chen Division of Molecular Radiation Biology, Department of Radiation Oncology, University of Texas Southwestern Medical Center, Dallas TX 75390 The integrity of the human genome is constantly threatened by internal as well as external factors with the propensity to cause DNA damage. Of the various types of DNA damage that can occur within the mammalian cell nucleus, the DNA double strand break (DSB) is perhaps the most dangerous. Estimates put the number of endogenous DSBs anywhere between 10-100 per nucleus per day. A direct link between DSBs and cancer has been surmised by researchers based upon the fact that many cancer-predisposition

45

The effect of double-stranded (DS) RNA on Monosporascus cannonballus culture morphology and virulence  

E-Print Network [OSTI]

Attempts to eliminate double-stranded (ds) RNA elements in Monosporascus cannonballus by subculturing on PDA amended with various concentrations of cycloheximide (O to 15 pg/ml) and incubating at elevated temperatures were partially effective...

Park, Yunjung

2012-06-07T23:59:59.000Z

46

Monosporascus root rot/vine decline: a study of double-stranded (DS) RNA and its role in the pathogenesis of Monosporascus cannonballus on muskmelon  

E-Print Network [OSTI]

Monosporascus Root Rot/Vine Decline: A Study of Double-Stranded (ds) RNA and Its Role in the Pathogenesis of Monosporascus cannonballus on Muskmelon. (May 1997) Jeffrey Samuel Batten, B. A. , Trinity University Co-Chairs of Advisory Committee: Dr. Raymond D... hybridization between cDNA clones (pJB14 and pJB38) and dsRNA from M 96+ cannonballus isolate, Ca91-17 55 IV-2 Agarose gel and corresponding northern blot showing hybridization between cDNA clones (pJB27, pJB28, pJB39, and pJB40) and dsRNA from M...

Batten, Jeffrey Samuel

2012-06-07T23:59:59.000Z

47

Single-Molecule Measurements of the Persistence Length of Double-Stranded RNA  

E-Print Network [OSTI]

Single-Molecule Measurements of the Persistence Length of Double-Stranded RNA J. A. Abels, FRNA using two different single-molecule techniques: magnetic tweezers and atomic force microscopy. We deduce. The introduction of these single-molecule techniques for dsRNA analysis opens the way for real-time, quantitative

Dekker, Nynke

48

DNA Assembly Method Standardization for Synthetic Biomolecular Circuits and Systems  

Science Journals Connector (OSTI)

Simply put, the DNA assembly challenge is to take a set of double-stranded DNA fragments, and physically (as well as ... to yield a single, potentially circular, assembled DNA sequence. These DNA sequence fragmen...

Nathan J. Hillson

2011-01-01T23:59:59.000Z

49

Exotic quantum transport in double-stranded Kronig-Penney model  

E-Print Network [OSTI]

We introduce double-stranded Kronig-Penney model and analyze its transport properties. The asymmetric fluxes between two strands with suddenly alternating localization patterns are found as the energy is varied. The zero-size limit of the internal lines connecting two strands is examined using quantum graph vertices with four edges. We also consider a two-dimensional Kronig-Penney lattice with two types of alternating layers with $\\delta$ and $\\delta'$ connections, and show that the existence of energy bands in which the quantum flux can flow only in selected directions.

Taksu Cheon; Sergey S. Poghosyan

2014-10-31T23:59:59.000Z

50

Low Dose Radiation Research Program: Assessing Biological Function of DNA  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Assessing Biological Function of DNA Damage Response Genes Assessing Biological Function of DNA Damage Response Genes Larry H. Thompson Lawrence Livermore National Laboratory Why This Project To understand the relative importance of individual DNA repair and DNA-damage response pathways to the recovery of mammalian cells after exposure to low doses of ionizing radiation (IR). This understanding may lead to better ways of setting limits on human exposure to IR. In spite of the discovery of many mammalian DNA repair genes, our current knowledge of how many of these genes contribute to cellular recovery from IR exposure is quite limited. Project Goals Measure cellular responses at doses in the 5-100 cGy range, which generally cause changes too small to detect in normal, repair-proficient cells Focus on DNA double-strand breaks (DSBs) and DNA oxidative base

51

Nucleic Acid Library Construction Using Synthetic DNA Constructs  

Science Journals Connector (OSTI)

The synthesis of a high-diversity double-stranded DNA pool can require hundreds of milliliters of...3,10...). Large volumes are required because the maximum concentration of single-stranded synthetic DNA template...

Hani S. Zaher; Peter J. Unrau

2005-01-01T23:59:59.000Z

52

Persistent DNA damage foci, cellular senescence and low dose radiation  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Persistent DNA damage foci, cellular senescence and low dose radiation Persistent DNA damage foci, cellular senescence and low dose radiation Denise Munoz 1 , Albert Davalos 1 , Francis Rodier 1 , Misako Kawahara 1 , Judith Campisi 1,2 and Steven Yannone 1,3 1 Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Mailstop 84-171, Berkeley CA 94720; 2 Buck Institute for Age Research, 8001 Redwood Boulevard, Novato CA 94945; 3 Corresponding author Ionizing radiation (IR) induced DNA double-strand breaks (DSBs) are cytologically detectable as large nuclear foci that contain phosphorylated histone H2AX (γH2AX), the adaptor protein 53BP1, and several other proteins that participate in the sensing and processing of DNA damage (DNA damage foci). In normal human cells, moderately high IR (0.5-1 Gy) doses cause the rapid appearance of these foci (acute DNA damage foci), which gradually disappear

53

Activation of double-stranded RNA-dependent protein kinase inhibits proliferation of pancreatic ?-cells  

SciTech Connect (OSTI)

Highlights: •PKR can be activated by glucolipitoxicity and pro-inflammatory cytokines in ?-cells. •Activated PKR inhibited ?-cell proliferation by arresting cell cycle at G1 phase. •Activated PKR fully abrogated the pro-proliferative effects of IGF-I on ?-cells. -- Abstract: Double-stranded RNA-dependent protein kinase (PKR) is revealed to participate in the development of insulin resistance in peripheral tissues in type 2 diabetes (T2DM). Meanwhile, PKR is also characterized as a critical regulator of cell proliferation. To date, no study has focused on the impact of PKR on the proliferation of pancreatic ?-cells. Here, we adopted insulinoma cell lines and mice islet ?-cells to investigate: (1) the effects of glucolipotoxicity and pro-inflammatory cytokines on PKR activation; (2) the effects of PKR on proliferation of pancreatic ?-cells and its underlying mechanisms; (3) the actions of PKR on pro-proliferative effects of IGF-I and its underlying pathway. Our results provided the first evidence that PKR can be activated by glucolipitoxicity and pro-inflammatory cytokines in pancreatic ?-cells, and activated PKR significantly inhibited cell proliferation by arresting cell cycle at G1 phase. Reductions in cyclin D1 and D2 as well as increases in p27 and p53 were associated with the anti-proliferative effects of PKR, and proteasome-dependent degradation took part in the reduction of cyclin D1 and D2. Besides, PKR activation abrogated the pro-proliferative effects of IGF-I by activating JNK and disrupting IRS1/PI3K/Akt signaling pathway. These findings indicate that the anti-proliferative actions of PKR on pancreatic ?-cells may contribute to the pathogenesis of T2DM.

Chen, Shan-Shan [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China) [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China); Department of Biochemistry and Molecular Biology, Nanjing Medical University, Nanjing (China); Jiang, Teng [Department of Neurology, Qingdao Municipal Hospital, Nanjing Medical University, Nanjing (China)] [Department of Neurology, Qingdao Municipal Hospital, Nanjing Medical University, Nanjing (China); Wang, Yi; Gu, Li-Ze [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China) [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China); Department of Biochemistry and Molecular Biology, Nanjing Medical University, Nanjing (China); Wu, Hui-Wen [Laboratory Center for Basic Medical Sciences, Nanjing Medical University, Nanjing (China)] [Laboratory Center for Basic Medical Sciences, Nanjing Medical University, Nanjing (China); Tan, Lan [Department of Neurology, Qingdao Municipal Hospital, Nanjing Medical University, Nanjing (China)] [Department of Neurology, Qingdao Municipal Hospital, Nanjing Medical University, Nanjing (China); Guo, Jun, E-mail: Guoj@njmu.edu.cn [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China) [Key Laboratory of Human Functional Genomics of Jiangsu Province, Nanjing Medical University, Nanjing (China); Department of Biochemistry and Molecular Biology, Nanjing Medical University, Nanjing (China)

2014-01-17T23:59:59.000Z

54

Effect of catechins and tannins on depleted uranium-induced DNA strand breaks  

Science Journals Connector (OSTI)

The effects of polyphenols on plasmid DNA strand breaks by depleted uranium were studied using four catechins: (+)...2 2+) with hydrogen peroxide (H2O2) were strongly enhanced by EGC, EGCG, MMT, a...

Emiko Matsuda; Akira Nakajima

2012-08-01T23:59:59.000Z

55

Natural insertions in rice commonly form tandem duplications indicative of patch-mediated double-strand break induction and repair  

Science Journals Connector (OSTI)

...high-throughput sequencing of DSB repair events in humans...conventional models of DSB repair are strained to predict...proposing that long patch base excision repair (BER) on complementary...in their short-read pipeline were true positives...

Justin N. Vaughn; Jeffrey L. Bennetzen

2014-01-01T23:59:59.000Z

56

SELF-ASSEMBLED DNA NANOSTRUCTURES AND DNA-TEMPLATED SILVER NANOWIRES  

E-Print Network [OSTI]

helix bundles, and the cross-tiles as well as synthetic double-stranded DNA moleculesSELF-ASSEMBLED DNA NANOSTRUCTURES AND DNA-TEMPLATED SILVER NANOWIRES by Sung Ha Park Department;ABSTRACT SELF-ASSEMBLED DNA NANOSTRUCTURES AND DNA-TEMPLATED SILVER NANOWIRES by Sung Ha Park Department

Reif, John H.

57

Low Dose Radiation Induced DNA Damage Signaling and Repair Responses in  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Induced DNA Damage Signaling and Repair Responses in Induced DNA Damage Signaling and Repair Responses in Human 3-Dimensional Skin Model System Yanrong Su, Jarah Meador and Adayabalam S. Balajee Center for Radiological Research, College of Physicians and Surgeons, Columbia University, 630 West, 168th Street, New York, NY 10032. Exposure to ionizing radiation (IR) inflicts a wide variety of lesions in the genomic DNA. Among them, DNA double strand break (DSB) is considered to be the critical lesion for most of the deleterious radiation effects including carcinogenesis. Much of our knowledge on induction and repair kinetics of DSB has come from studies in two dimensional cell culture systems. However, the damage signaling and repair responses to DSB in tissue microenvironment are largely unknown. Knowledge of tissue responses to

58

Chemical mapping of DNA and counter-ion content inside phage by energy-filtered TEM  

Science Journals Connector (OSTI)

Double-stranded DNA in many bacterial viruses (phage) is strongly confined, which results in internal genome pressures of tens of atmospheres. This pressure is strongly dependent on local ion concentration and di...

Pernilla Nevsten; Alex Evilevitch; Reine Wallenberg

2012-03-01T23:59:59.000Z

59

Monitoring a genetically engineered bacterium in a freshwater environment by rapid enzymatic amplification of a synthetic DNA “number-plate”  

Science Journals Connector (OSTI)

In order to set up a sensitive and reliable detection method to monitor environmentally released genetically engineered microorganisms (GEMs) a 72-bp, double-stranded DNA fragment has been built by annealing and ...

Augusto Amici; Marco Bazzicalupo; Enzo Gallori…

1991-11-01T23:59:59.000Z

60

Optimized fabrication and electrical analysis of silver nanowires templated on DNA molecules  

E-Print Network [OSTI]

. In this letter, we present the base sequence design of synthetic double-stranded DNA dsDNA and fabrication of metallic silver nanowires templated on both synthetic dsDNA and bacteriophage -DNA molecules. We also as programmable interconnects in bio- electronic devices. The DNA base sequence of the synthetic unit dsDNA tile

Finkelstein, Gleb

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


61

Mutations Abrogating VP35 Interaction with Double-Stranded RNA Render Ebola Virus Avirulent in Guinea Pigs  

SciTech Connect (OSTI)

Ebola virus (EBOV) protein VP35 is a double-stranded RNA (dsRNA) binding inhibitor of host interferon (IFN)-{alpha}/{beta} responses that also functions as a viral polymerase cofactor. Recent structural studies identified key features, including a central basic patch, required for VP35 dsRNA binding activity. To address the functional significance of these VP35 structural features for EBOV replication and pathogenesis, two point mutations, K319A/R322A, that abrogate VP35 dsRNA binding activity and severely impair its suppression of IFN-{alpha}/{beta} production were identified. Solution nuclear magnetic resonance (NMR) spectroscopy and X-ray crystallography reveal minimal structural perturbations in the K319A/R322A VP35 double mutant and suggest that loss of basic charge leads to altered function. Recombinant EBOVs encoding the mutant VP35 exhibit, relative to wild-type VP35 viruses, minimal growth attenuation in IFN-defective Vero cells but severe impairment in IFN-competent cells. In guinea pigs, the VP35 mutant virus revealed a complete loss of virulence. Strikingly, the VP35 mutant virus effectively immunized animals against subsequent wild-type EBOV challenge. These in vivo studies, using recombinant EBOV viruses, combined with the accompanying biochemical and structural analyses directly correlate VP35 dsRNA binding and IFN inhibition functions with viral pathogenesis. Moreover, these studies provide a framework for the development of antivirals targeting this critical EBOV virulence factor.

Prins, Kathleen C.; Delpeut, Sebastien; Leung, Daisy W.; Reynard, Olivier; Volchkova, Valentina A.; Reid, St. Patrick; Ramanan, Parameshwaran; Cárdenas, Washington B.; Amarasinghe, Gaya K.; Volchkov, Viktor E.; Basler, Christopher F. (CNRS-INSERM); (Mount Sinai Hospital); (LB-Ecuador); (Iowa State)

2010-10-11T23:59:59.000Z

62

Breaking  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

2 Volume 9 Issue 3 2 Volume 9 Issue 3 Closer kin for reference . . . . . . . . . . . . . . . . . . . . . . . 2 Breaking down pulp . . . . . . . . . . . . . . . . . . . . . . . . . 3 Single-cell genomics at the DOE JGI . . . . . . . . . . . . 4 In the news . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-7 also in this issue MASSIE SANTOS BALLON The Department of Energy focuses on a variety of alternative energy sources rather than putting all its eggs in one basket. At the recently concluded 7th annual Sequencing, Finishing, Analysis in the Future (SFAF) Meeting held June 5-7, 2012, a similar message came through as speakers discussed combining sequencing platforms and conducting hybrid assemblies to produce more useful data in the form of finished genome sequences. Since the first Sequencing in the Future Meeting held in Santa Fe, New Mexico seven years ago, the number of attendees has increased each year from a starting group of 70, reaching a

63

KUB5/HERA: a dual acting protein that suppresses genomic instability and promotes DNA repair after low dose IR exposure  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

KUB5/HERA: a dual acting protein that suppresses genomic instability and KUB5/HERA: a dual acting protein that suppresses genomic instability and promotes DNA repair after low dose IR exposure Julio C. Morales 1 , Amy Rommel 1 , Konstantin Leskov 2 , Walter M. Hittelman 3 , David A. Boothman 1# 1 Simmons Cancer Center, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA. 2 Department of Radiation Oncology, Case Western Reserve University, Cleveland, OH 44106, USA. 3 Department of Experimental Therapeutics, M.D. Anderson Cancer Center, Houston, TX 77030, USA. # To whom correspondence should be addressed. E-mail: David.Boothman@utsouthwestern.edu Eukaryotic cells can respond to DNA double strand breaks created by low doses of IR by activating homologous recombination (HR) or non-homologous end- joining (NHEJ) pathways to repair DNA. A yeast two-hybrid screen using Ku70 as

64

Natural and synthetic double-stranded DNA binding studies of macrocyclic tetraamine zinc(II) complexes appended with polyaromatic groups  

Science Journals Connector (OSTI)

...?The characteristic binding mode of zinc(II) complexes of macrocyclic tetraamines (1,4,7,10-tetraazacyclododecane, cyclen) appended with one or two arylmethyl group(s) [(4-quinolyl)methyl-, 1,7-bis(4-quinolyl)...

Emiko Kikuta; Naomi Katsube; E. Kimura

1999-08-01T23:59:59.000Z

65

Determination of nucleotide sequences in DNA  

Science Journals Connector (OSTI)

...nu-cleotides long, which codes for ten genes. The most unexpected finding from this work was the presence of 3' 5' 5' 3' sExo l 5' W3e_3 5' Fig. 5. Degradation of double-stranded DNA with exonuclease III. Restriction Galactosidase enzyme site...

F Sanger

1981-12-11T23:59:59.000Z

66

DNA-Repair Genetic Polymorphisms and Breast Cancer Risk  

Science Journals Connector (OSTI)

...auspices of US Department of Energy Contract #W-7405-ENG-48...double-strand break; FH, family history; HWE, Hardy-Weinberg...R., Perry H. R., Price F. M., Sanford K...adjustment for age, family history, age at menarche, age...North Carolina 27157, USA. | Journal Article Research...

Tasha R. Smith; Edward A. Levine; Nancy D. Perrier; Mark Steven Miller; Rita I. Freimanis; Kurt Lohman; L. Douglas Case; Jianfeng Xu; Harvey W. Mohrenweiser; and Jennifer J. Hu

2003-11-01T23:59:59.000Z

67

Ionizing Radiation Damage to the Folded Chromosome of Escherichia coli K-12: Repair of Double-Strand Breaks in Deoxyribonucleic Acid  

Science Journals Connector (OSTI)

...cell survival Dose (krad) % Recovery...it is in the range of sedimentation...that direct, radiation-induced cross-linking...during repair of ionizing radiation damage (3...is within the range ofsedimentation...biologically significant dose range. Unfortu...

Kevin M. Ulmer; Reinaldo F. Gomez; Anthony J. Sinskey

1979-05-01T23:59:59.000Z

68

Gene Conversion Is Strongly Induced in Human Cells by Double-strand Breaks and Is Modulated by the Expression of BCL-xL  

Science Journals Connector (OSTI)

...with the time of incubation. Factors responsible for the Pasteur...glycolytic and the respiratory energy. This appears to be a unique...date can use only respiratory energy for Pi transport. Rate-limiting factors in glycolysis and transport...

Claudia Wiese; Andrew J. Pierce; Stacey S. Gauny; Maria Jasin; and Amy Kronenberg

2002-03-01T23:59:59.000Z

69

DNA Duplication Revealed in New Beginnings | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

DNA Duplication Revealed in New Beginnings DNA Duplication Revealed in New Beginnings DNA Duplication Revealed in New Beginnings April 3, 2012 - 9:36am Addthis The DNA replication origin recognition complex (ORC) is a six-protein machine with a slightly twisted half-ring structure (yellow). ORC is proposed to wrap around and bend approximately 70 base pairs of double stranded DNA (red and blue). When a replication initiator Cdc6 (green) joins ORC, the partial ring is now complete and ready to load another protein onto the DNA. This last protein (not shown) is the enzyme that unwinds the double stranded DNA so each strand can be replicated. | Illustration courtesy of Brookhaven Lab. The DNA replication origin recognition complex (ORC) is a six-protein machine with a slightly twisted half-ring structure (yellow). ORC is

70

A mammalian origin of bidirectional DNA replication within the Chinese hamster RPS14 locus.  

Science Journals Connector (OSTI)

...hybridization with a different nick translated [32P]DNA probe...labeled with [32P]dATP by nick translation. Identification...50). This approach has the merit of not requiring synchronized...double-stranded [32P]DNA prepared by nick translation from the cloned...

E S Tasheva; D J Roufa

1994-09-01T23:59:59.000Z

71

Redmond Red as a Redox Probe for the DNA-Mediated Detection of Abasic Sites  

Science Journals Connector (OSTI)

Redmond Red, a fluoropore containing a redox-active phenoxazine core, has been explored as a new electrochemical probe for the detection of abasic sites in double-stranded DNA. The electrochemical behavior of Redmond Red-modified DNA at gold surfaces ...

Marisa C. Buzzeo; Jacqueline K. Barton

2008-10-03T23:59:59.000Z

72

ATP Hydrolysis and DNA Binding by the Escherichia coli RecF Protein*  

E-Print Network [OSTI]

ATP Hydrolysis and DNA Binding by the Escherichia coli RecF Protein* (Received for publication ATP hydrolytic activity. ATP hydrolysis leads to RecF dissociation from double-stranded (ds to DNA. A mutant RecF protein that can bind but cannot hydrolyze ATP (RecF K36R) does not readily

Cox, Michael M.

73

Derivatized versions of ligase enzymes for constructing DNA sequences  

SciTech Connect (OSTI)

A method of making very long, double-stranded synthetic poly-nucleotides. A multiplicity of short oligonucleotides is provided. The short oligonucleotides are sequentially hybridized to each other. Enzymatic ligation of the oligonucleotides provides a contiguous piece of PCR-ready DNA of predetermined sequence.

Mariella, Jr., Raymond P. (Danville, CA); Christian, Allen T. (Tracy, CA); Tucker, James D. (Novi, MN); Dzenitis, John M. (Livermore, CA); Papavasiliou, Alexandros P. (Oakland, CA)

2006-08-15T23:59:59.000Z

74

DUPLEX: A molecular mechanics program in torsion angle space for computing structures of DNA and RNA  

SciTech Connect (OSTI)

DUPLEX produces energy minimized structures of DNA and RNA of any base sequence for single and double strands. The smallest subunits are deoxydinucleoside monophosphates, and up to 12 residues, single or double stranded can be treated. In addition, it can incorporate NMR derived interproton distances an constraints in the minimizations. Both upper and lower bounds for these distances can be specified. The program has been designed to run on a UNICOS Cray supercomputer, but should run, albeit slowly, on a laboratory computer such as a VAX or a workstation.

Hingerty, B.E.

1992-07-01T23:59:59.000Z

75

Divalent Ion and Thermally Induced DNA Conformational Polymorphism on Single-walled  

E-Print Network [OSTI]

coverage on nanotubes dispersed in aqueous solution decreases, the emission energy decreases (due Nanotubes Hong Jin1 , Esther S. Jeng1 , Daniel A. Heller2 , Prakrit V. Jena3 , Robert Kirmse4 , Jörg and double stranded DNA can wrap and colloidally stabilize single walled carbon nanotubes in solution

Langowski, Jörg

76

1 15/03/2006 Complexity of excited state dynamics in DNA  

E-Print Network [OSTI]

of model DNA helices using femtosecond transient absorption spectroscopy1 and by observing been assigned to excimer emission9, 10 . We observe that, in contrast to the transient absorption of these single and double strands at identical wavelengths. Neither in fluorescence nor in transient absorption

Boyer, Edmond

77

Chronic hepatitis in chimpanzee carriers of hepatitis B virus: morphologic, immunologic, and viral DNA studies  

Science Journals Connector (OSTI)

...core antigen (anti-HBc), and Dane particles in the serum. Therefore, it appeared...Acad. Sc. USA 77 (1980) 6149 _ 4 ' God. wl., CA _> ~ ~ ~~~~ - -4o...represents fully double-stranded Dane particle DNA. Characterization of the 4100-base-pair...

D Shouval; P R Chakraborty; N Ruiz-Opazo; S Baum; I Spigland; E Muchmore; M A Gerber; S N Thung; H Popper; D A Shafritz

1980-01-01T23:59:59.000Z

78

Effect of silver nanoparticle and glycyrrhizic acid (SN-GLY) complex on repair of whole body radiation-induced cellular DNA damage and genomic instability in mice  

Science Journals Connector (OSTI)

Silver nanoparticles (SN) were redispersed in aqueous solution of Pluronic F127 and complexed with the phytoceutical, glycyrrhizic acid (GLY) to obtain SN-GLY complex. The ability of the SN-GLY complex to offer protection against ionising radiation in post-irradiation scenarios was evaluated in ex vivo and in vivo models using Swiss albino mice. Treatment of mouse blood leucocytes with SN-GLY immediately after 4 Gy gamma radiation exposure, ex vivo, enhanced the rate of repair of cellular DNA damages as revealed by comet assay. Exposure of mice to 4 Gy whole body gamma radiation induced formation of strand breaks in cellular DNA and the unrepaired double strand breaks eventually caused the formation of micronuclei. The post-irradiation administration of SN-GLY resulted in a faster decrease in the comet parameters indicating enhanced cellular DNA repair process and reduction in micronucleus formation. Thus the studies showed effective radiation protection by SN-GLY in post-irradiation conditions.

Dhanya K. Chandrasekharan; Cherupally Krishnan Krishnan Nair

2010-01-01T23:59:59.000Z

79

C-terminal region of DNA ligase IV drives XRCC4/DNA ligase IV complex to chromatin  

SciTech Connect (OSTI)

Highlights: •Chromatin binding of XRCC4 is dependent on the presence of DNA ligase IV. •C-terminal region of DNA ligase IV alone can recruit itself and XRCC4 to chromatin. •Two BRCT domains of DNA ligase IV are essential for the chromatin binding of XRCC4. -- Abstract: DNA ligase IV (LIG4) and XRCC4 form a complex to ligate two DNA ends at the final step of DNA double-strand break (DSB) repair through non-homologous end-joining (NHEJ). It is not fully understood how these proteins are recruited to DSBs. We recently demonstrated radiation-induced chromatin binding of XRCC4 by biochemical fractionation using detergent Nonidet P-40. In the present study, we examined the role of LIG4 in the recruitment of XRCC4/LIG4 complex to chromatin. The chromatin binding of XRCC4 was dependent on the presence of LIG4. The mutations in two BRCT domains (W725R and W893R, respectively) of LIG4 reduced the chromatin binding of LIG4 and XRCC4. The C-terminal fragment of LIG4 (LIG4-CT) without N-terminal catalytic domains could bind to chromatin with XRCC4. LIG4-CT with W725R or W893R mutation could bind to chromatin but could not support the chromatin binding of XRCC4. The ability of C-terminal region of LIG4 to interact with chromatin might provide us with an insight into the mechanisms of DSB repair through NHEJ.

Liu, Sicheng; Liu, Xunyue; Kamdar, Radhika Pankaj; Wanotayan, Rujira; Sharma, Mukesh Kumar [Research Laboratory for Nuclear Reactors and Department of Nuclear Engineering, Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo 152-8550 (Japan)] [Research Laboratory for Nuclear Reactors and Department of Nuclear Engineering, Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo 152-8550 (Japan); Adachi, Noritaka [Graduate School of Nanobioscience, Yokohama City University, Yokohama 236-0027 (Japan)] [Graduate School of Nanobioscience, Yokohama City University, Yokohama 236-0027 (Japan); Matsumoto, Yoshihisa, E-mail: yoshim@nr.titech.ac.jp [Research Laboratory for Nuclear Reactors and Department of Nuclear Engineering, Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo 152-8550 (Japan)] [Research Laboratory for Nuclear Reactors and Department of Nuclear Engineering, Graduate School of Science and Engineering, Tokyo Institute of Technology, Tokyo 152-8550 (Japan)

2013-09-20T23:59:59.000Z

80

The Novel Poly(ADP-Ribose) Polymerase Inhibitor, AG14361, Sensitizes Cells to Topoisomerase I Poisons by Increasing the Persistence of DNA Strand Breaks  

Science Journals Connector (OSTI)

...topoisomerase I as a resistance mechanism to camptothecin in tumour cells. Cancer Res 2001;61:5926-32. 46 El-Khamisy SF, Saifi GM, Weinfeld M, et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy. Nature...

Lisa M. Smith; Elaine Willmore; Caroline A. Austin; Nicola J. Curtin

2005-12-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


81

Chemical repair of base lesions, AP-sites, and strand breaks on plasmid DNA in dilute aqueous solution by ascorbic acid  

SciTech Connect (OSTI)

Highlights: •We report a novel mechanism of radiation protection of DNA by chemical activity of ascorbic acid. •The “chemical repair” of DNA damage was revealed using biochemical assay and chemical kinetics analysis. •We found that ascorbic acid significantly repairs precursors of nucleobase lesions and abasic sites. •However, ascorbic acid seldom repairs precursors of DNA-strand breaks. -- Abstract: We quantified the damage yields produced in plasmid DNA by ?-irradiation in the presence of low concentrations (10–100 ?M) of ascorbic acid, which is a major antioxidant in living systems, to clarify whether it chemically repairs radiation damage in DNA. The yield of DNA single strand breaks induced by irradiation was analyzed with agarose gel electrophoresis as conformational changes in closed circular plasmids. Base lesions and abasic sites were also observed as additional conformational changes by treating irradiated samples with glycosylase proteins. By comparing the suppression efficiencies to the induction of each DNA lesion, in addition to scavenging of the OH radicals derived from water radiolysis, it was found that ascorbic acid promotes the chemical repair of precursors of AP-sites and base lesions more effectively than those of single strand breaks. We estimated the efficiency of the chemical repair of each lesion using a kinetic model. Approximately 50–60% of base lesions and AP-sites were repaired by 10 ?M ascorbic acid, although strand breaks were largely unrepaired by ascorbic acid at low concentrations. The methods in this study will provide a route to understanding the mechanistic aspects of antioxidant activity in living systems.

Hata, Kuniki [Department of Nuclear Engineering and Management, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656 (Japan) [Department of Nuclear Engineering and Management, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656 (Japan); Advanced Science Research Center, Japan Atomic Energy Agency, 2-4 Shirakatashirane, Tokai-mura, Naka-gun, Ibaraki 319-1195 (Japan); Urushibara, Ayumi; Yamashita, Shinichi; Shikazono, Naoya; Yokoya, Akinari [Advanced Science Research Center, Japan Atomic Energy Agency, 2-4 Shirakatashirane, Tokai-mura, Naka-gun, Ibaraki 319-1195 (Japan)] [Advanced Science Research Center, Japan Atomic Energy Agency, 2-4 Shirakatashirane, Tokai-mura, Naka-gun, Ibaraki 319-1195 (Japan); Katsumura, Yosuke, E-mail: katsu@n.t.u-tokyo.ac.jp [Department of Nuclear Engineering and Management, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656 (Japan) [Department of Nuclear Engineering and Management, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656 (Japan); Nuclear Professional School, School of Engineering, The University of Tokyo, 2-22 Shirakatashirane, Tokai-mura, Naka-gun, Ibaraki 319-1188 (Japan)

2013-05-03T23:59:59.000Z

82

Induction and Persistence of Large ?H2AX Foci by High Linear Energy Transfer Radiation in DNA-Dependent protein kinase–Deficient Cells  

SciTech Connect (OSTI)

Purpose: To evaluate the cell response to DNA double-strand breaks induced by low and high linear energy transfer (LET) radiations when the catalytic subunit of DNA-dependent protein kinase (DNA-PKcs), an essential protein of the nonhomologous end-joining repair pathway, lacks kinase activity. Methods and Materials: CHO10B2, a Chinese hamster ovary cell line, and its derived radiosensitive mutant cell line, irs-20, lacking DNA-PKcs activity, were evaluated after 0 to 3 Gy of ?-rays, plateau and Bragg peak protons, and lithium beams by clonogenic assay, and as a measurement of double-strand breaks, phosphorylated H2AX (?H2AX) foci number and size were quantified by immunocytofluorescence. Results: Irs-20 exhibited greater radiosensitivity and a higher amount of ?H2AX foci than CHO10B2 at 6 hours after irradiation for all types of radiations. Remarkably, CHO10B2 and irs-20 maintained their difference in radiosensitivity after high-LET radiation. Six hours after low-LET radiations, irs-20 did not reach basal levels of ?H2AX at high doses, whereas CHO10B2 recovered basal levels for all doses. After high-LET radiation, only CHO10B2 exhibited a reduction in ?H2AX foci, but it never reached basal levels. Persistent foci in irs-20 confirmed a repair deficiency. Interestingly, after 30 minutes of high-LET radiation both cell lines exhibited large foci (size >0.9 ?m{sup 2}) related to the damage nature, whereas at 6 hours irs-20 showed a higher amount of large foci than CHO10B2, with a 7-fold increase at 3 Gy, that could also be associated to radiosensitivity. Conclusions: We demonstrated, for the first time, an association between deficient DNA-PKcs activity and not only high levels of H2AX phosphorylation but also persistence and size increase of ?H2AX foci after high-LET irradiation.

Bracalente, Candelaria; Ibañez, Irene L. [Departamento de Micro y Nanotecnología, Comisión Nacional de Energía Atómica, San Martín, Buenos Aires (Argentina); Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires (Argentina); Molinari, Beatriz [Departamento de Radiobiología, Comisión Nacional de Energía Atómica, San Martín, Buenos Aires (Argentina); Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires (Argentina); Palmieri, Mónica [Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos Aires (Argentina); Kreiner, Andrés [Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires (Argentina); Gerencia de Investigación y Aplicaciones, Comisión Nacional de Energía Atómica, San Martín, Buenos Aires (Argentina); Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, San Martín, Buenos Aires (Argentina); Valda, Alejandro [Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, San Martín, Buenos Aires (Argentina); and others

2013-11-15T23:59:59.000Z

83

DNA-PK inhibition causes a low level of H2AX phosphorylation and homologous recombination repair in Medaka (Oryzias latipes) cells  

SciTech Connect (OSTI)

Highlights: Black-Right-Pointing-Pointer We investigated the effect of DNA-PK inhibition on DSB repair using fish cells. Black-Right-Pointing-Pointer A radiation sensitive mutant RIC1 strain showed a low level of DNA-PK activity. Black-Right-Pointing-Pointer DNA-PK dysfunction leads defects in HR repair and DNA-PKcs autophosphorylation. Black-Right-Pointing-Pointer DNA-PK dysfunction leads a slight increase in the number of 53BP1 foci after DSBs. Black-Right-Pointing-Pointer DNA-PK dysfunction leads an alternative NHEJ that depends on 53BP1. -- Abstract: Nonhomologous end joining (NHEJ) and homologous recombination (HR) are known as DNA double-strand break (DSB) repair pathways. It has been reported that DNA-PK, a member of PI3 kinase family, promotes NHEJ and aberrant DNA-PK causes NHEJ deficiency. However, in this study, we demonstrate that a wild-type cell line treated with DNA-PK inhibitor and a mutant cell line with dysfunctional DNA-PK showed decreased HR efficiency in fish cells (Medaka, Oryzias latipes). Previously, we reported that the radiation-sensitive mutant RIC1 strain has a defect in the Histone H2AX phosphorylation after {gamma}-irradiation. Here, we showed that a DNA-PK inhibitor, NU7026, treatment resulted in significant reduction in the number of {gamma}H2AX foci after {gamma}-irradiation in wild-type cells, but had no significant effect in RIC1 cells. In addition, RIC1 cells showed significantly lower levels of DNA-PK kinase activity compared with wild-type cells. We investigated NHEJ and HR efficiency after induction of DSBs. Wild-type cells treated with NU7026 and RIC1 cells showed decreased HR efficiency. These results indicated that aberrant DNA-PK causes the reduction in the number of {gamma}H2AX foci and HR efficiency in RIC1 cells. We performed phosphorylated DNA-PKcs (Thr2609) and 53BP1 focus assay after {gamma}-irradiation. RIC1 cells showed significant reduction in the number of phosphorylated DNA-PKcs foci and no deference in the number of 53BP1 foci compared with wild-type cells. These results suggest that low level of DNA-PK activity causes aberrant DNA-PKcs autophosphorylation in RIC1 cells. It is known that 53BP1 is involved in both DNA-PK dependent and independent NHEJ. Therefore we suggest that DNA-PK independent NHEJ repair DSBs under the condition of decreased DNA-PK activity, which causes reduction of HR efficiency.

Urushihara, Yusuke [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan)] [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan); Kobayashi, Junya [Department of Genome Repair Dynamics, Radiation Biology Center, Kyoto University, Kyoto 606-8501 (Japan)] [Department of Genome Repair Dynamics, Radiation Biology Center, Kyoto University, Kyoto 606-8501 (Japan); Matsumoto, Yoshihisa [Research Laboratory for Nuclear Reactors, Tokyo Institute of Technology, Tokyo 152-8550 (Japan)] [Research Laboratory for Nuclear Reactors, Tokyo Institute of Technology, Tokyo 152-8550 (Japan); Komatsu, Kenshi [Department of Genome Repair Dynamics, Radiation Biology Center, Kyoto University, Kyoto 606-8501 (Japan)] [Department of Genome Repair Dynamics, Radiation Biology Center, Kyoto University, Kyoto 606-8501 (Japan); Oda, Shoji [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan)] [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan); Mitani, Hiroshi, E-mail: mitani@k.u-tokyo.ac.jp [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan)] [Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Chiba 277-8562 (Japan)

2012-12-14T23:59:59.000Z

84

DNA repair: Dynamic defenders against cancer and aging  

SciTech Connect (OSTI)

You probably weren't thinking about your body's cellular DNA repair systems the last time you sat on the beach in the bright sunshine. Fortunately, however, while you were subjecting your DNA to the harmful effects of ultraviolet light, your cells were busy repairing the damage. The idea that our genetic material could be damaged by the sun was not appreciated in the early days of molecular biology. When Watson and Crick discovered the structure of DNA in 1953 [1], it was assumed that DNA is fundamentally stable since it carries the blueprint of life. However, over 50 years of research have revealed that our DNA is under constant assault by sunlight, oxygen, radiation, various chemicals, and even our own cellular processes. Cleverly, evolution has provided our cells with a diverse set of tools to repair the damage that Mother Nature causes. DNA repair processes restore the normal nucleotide sequence and DNA structure of the genome after damage [2]. These responses are highly varied and exquisitely regulated. DNA repair mechanisms are traditionally characterized by the type of damage repaired. A large variety of chemical modifications can alter normal DNA bases and either lead to mutations or block transcription if not repaired, and three distinct pathways exist to remove base damage. Base excision repair (BER) corrects DNA base alterations that do not distort the overall structure of the DNA helix such as bases damaged by oxidation resulting from normal cellular metabolism. While BER removes single damaged bases, nucleotide excision repair (NER) removes short segments of nucleotides (called oligonucleotides) containing damaged bases. NER responds to any alteration that distorts the DNA helix and is the mechanism responsible for repairing bulky base damage caused by carcinogenic chemicals such as benzo [a]pyrene (found in cigarette smoke and automobile exhaust) as well as covalent linkages between adjacent pyrimidine bases resulting from the ultraviolet (UV) component of sunlight. NER can be divided into two classes based on where the repair occurs. NER occurring in DNA that is not undergoing transcription (i.e., most of the genome) is called global genome repair (GGR or GGNER), while NER taking place in the transcribed strand of active genes is called transcription-coupled repair (TCR or TC-NER). We will explore NER in more detail below. Mismatch repair (MMR) is another type of excision repair that specifically removes mispaired bases resulting from replication errors. DNA damage can also result in breaks in the DNA backbone, in one or both strands. Single-strand breaks (SSBs) are efficiently repaired by a mechanism that shares common features with the later steps in BER. Double-strand breaks (DSBs) are especially devastating since by definition there is no intact complementary strand to serve as a template for repair, and even one unrepaired DSB can be lethal [3]. In cells that have replicated their DNA prior to cell division, the missing information can be supplied by the duplicate copy, or sister chromatid, and DSBs in these cells are faithfully repaired by homologous recombination involving the exchange of strands of DNA between the two copies. However, most cells in the body are non-dividing, and in these cells the major mechanism for repairing DSBs is by non-homologous end joining (NHEJ), which as the name implies involves joining two broken DNA ends together without a requirement for homologous sequence and which therefore has a high potential for loss of genetic information.

Fuss, Jill O.; Cooper, Priscilla K.

2006-04-01T23:59:59.000Z

85

The impact of age, exposure and genetics on homologous recombination at the engineered repeat sequence in mice  

E-Print Network [OSTI]

Mitotic homologous recombination is a critical pathway for the repair of DNA double-strand breaks and broken replication forks. Although homologous recombination is generally error-free, recombination between misaligned ...

Wiktor-Brown, Dominika M

2007-01-01T23:59:59.000Z

86

MDM2 Is Required for Suppression of Apoptosis by Activated Akt1 in Salivary Acinar Cells  

Science Journals Connector (OSTI)

...serves to hydrolyze starches to simple sugars (97). Expression of amylase was analyzed in all...double-stranded DNA breaks (84), and gamma...suggest that the down-regulation of p53...Biochemistry of human alpha amylase isoenzymes. Crit...

Kirsten H. Limesand; Kathryn L. Schwertfeger; Steven M. Anderson

2006-09-18T23:59:59.000Z

87

E-Print Network 3.0 - adjacent pericarcinomatous foci Sample...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

p53 binding protein 1 foci as a biomarker of DNA double strand breaks induced by ionizing radiation... Radiation effect Bysta effect 53 BP1 a b s t r a c t Foci of p53 binding...

88

Mass spectrometric characterization of sequence-specific complexes of DNA and transcription factor PU.1 DNA binding domain  

SciTech Connect (OSTI)

Electrospray ionization mass spectrometry (ESI-MS) has been used to study the noncovalent interaction of the 13.5-kDa DNA binding domain of PU.1 (PU.1-DBD) with specific double-stranded DNA (dsDNA) target molecules. Mixtures of PU.1-DBD protein and wildtype target DNA sequence yielded ESI-MS spectra showing only protein-dsDNA complex ions of 1:1 stoichiometry and free dsDNA. When PU.1-DBD protein, wild type target DNA, and a mutant target DNA lacking the consensus sequence were mixed, only the 1:1 complex with the wild-type DNA was observed, consistent with gel electrophoresis mobility shift assay results, demonstrating the observation of sequence-specific protein-dsDNA complexes using ESI-MS. 22 refs., 5 figs., 1 tab.

Cheng, Xueheng; Harms, A.C.; Bruce, J.E. [Pacific Northwest National Lab., Richland, WA (United States)] [and others] [Pacific Northwest National Lab., Richland, WA (United States); and others

1996-07-15T23:59:59.000Z

89

Slow elimination of phosphorylated histone {gamma}-H2AX from DNA of terminally differentiated mouse heart cells in situ  

SciTech Connect (OSTI)

Phosphorylation of replacement histone H2AX occurs in megabase chromatin domains around double-strand DNA breaks (DSBs) and this modification (called {gamma}-H2AX) may serve as a useful marker of genome damage and repair in terminally differentiated cells. Here using immunohistochemistry we studied kinetics of {gamma}-H2AX formation and elimination in the X-irradiated mouse heart and renal epithelial tissues in situ. Unirradiated tissues have 3-5% {gamma}-H2AX-positive cells and in tissues fixed 1 h after X-irradiation {gamma}-H2AX-positive nuclei are induced in a dose-dependent manner approaching 20-30% after 3 Gy of IR. Analysis of mouse tissues at different times after 3 Gy of IR showed that maximal induction of {gamma}-H2AX in heart is observed 20 min after IR and then is decreased slowly with about half remaining 23 h later. In renal epithelium maximum of the {gamma}-H2AX-positive cells is observed 40 min after IR and then decreases to control values in 23 h. This indicates that there are significant variations between non-proliferating mammalian tissues in the initial H2AX phosphorylation rate as well as in the rate of {gamma}-H2AX elimination after X-irradiation, which should be taken into account in the analysis of radiation responses.

Gavrilov, Boris [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Vezhenkova, Irina [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Firsanov, Denis [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Solovjeva, Liudmila [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Svetlova, Maria [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Mikhailov, Vyacheslav [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation); Tomilin, Nikolai [Institute of Cytology, Russian Academy of Sciences, 194064 St. Petersburg (Russian Federation)]. E-mail: nvtom@hotmail.com

2006-09-08T23:59:59.000Z

90

HIV-1 Tat depresses DNA-PK{sub CS} expression and DNA repair, and sensitizes cells to ionizing radiation  

SciTech Connect (OSTI)

Purpose There is accumulating evidence that cancer patients with human immmunodeficiency virus-1/acquired immunodeficency syndrome (HIV-1/AIDS) have more severe tissue reactions and often develop cutaneous toxic effects when subjected to radiotherapy. Here we explored the effects of the HIV-1 Tat protein on cellular responses to ionizing radiation. Methods and Materials Two Tat-expressing cell lines, TT2 and TE671-Tat, were derived from human rhabdomyosarcoma cells by transfecting with the HIV-1 tat gene. Radiosensitivity was determined using colony-forming ability. Gene expression was assessed by cDNA microarray and immunohybridization. The Comet assay and {gamma}-H2AX foci were use to detect DNA double-strand breaks (DSBs) and repair. Radiation-induced cell cycle changes were detected by flow cytometry. Results The radiosensitivity of TT2 and TE671-Tat cells was significantly increased as compared with parental TE671 cells or the control TE671-pCI cells. Tat also increased proliferation activity. The comet assay and {gamma}H2AX foci detection revealed a decreased capacity to repair radiation-induced DNA DSBs in Tat-expressing cells. Microarray assay demonstrated that the DNA repair gene DNA-PKcs, and cell cycle-related genes Cdc20, Cdc25C, KIF2C and CTS1 were downregulated in Tat-expressing cells. Depression of DNA-PKcs in Tat-expressing cells was further confirmed by RT-PCR and immuno-hybridization analysis. Tat-expressing cells exhibited a prolonged S phase arrest after 4 Gy {gamma}-irradiation, and a noticeable delay in the initiation and elimination of radiation-induced G{sub 2}/M arrest as compared with parental cells. In addition, the G{sub 2}/M arrest was incomplete in TT2 cells. Moreover, HIV-1 Tat resulted in a constitutive overexpression of cyclin B1 protein. Conclusion HIV-1 Tat protein sensitizes cells to ionizing radiation via depressing DNA repair and dysregulating cell cycle checkpoints. These observations provide new insight into the increased tissue reactions of AIDS cancer patients to radiotherapy.

Sun Yi [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Huang Yuechen [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Xu Qinzhi [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Wang Huiping [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Bai Bei [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Sui Jianli [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China); Zhou Pingkun [Department of Radiation Toxicology and Oncology, Beijing Institute of Radiation Medicine, Beijing (China)]. E-mail: zhoupk@nic.bmi.ac.cn

2006-07-01T23:59:59.000Z

91

Artificial and Solar UV Radiation Induces Strand Breaks and Cyclobutane Pyrimidine Dimers in Bacillus subtilis Spore DNA  

Science Journals Connector (OSTI)

...ECOLOGY Artificial and Solar UV Radiation Induces Strand Breaks and Cyclobutane...to solar UV-B and UV-A radiation (Y. Xue and W. L. Nicholson...monitoring studies at Tokyo, Japan. . N. Munakata Biologically...effective dose of solar ultraviolet radiation estimated by spore dosimetry...

Tony A. Slieman; Wayne L. Nicholson

2000-01-01T23:59:59.000Z

92

Thermodynamic relations for DNA phase transitions  

E-Print Network [OSTI]

The force induced unzipping transition of a double stranded DNA is considered from a purely thermodynamic point of view. This analysis provides us with a set of relations that can be used to test microscopic theories and experiments. The thermodynamic approach is based on the hypothesis of impenetrability of the force in the zipped state. The melting and the unzipping transitions are considered in the same framework and compared with the existing statistical model results. The analysis is then extended to a possible continuous unzipping transition.

Poulomi Sadhukhan; Somendra M. Bhattacharjee

2014-01-21T23:59:59.000Z

93

Structure of gramicidin D-RbCl complex at atomic resolution from low-temperature synchrotron data: interactions of double-stranded gramicidin channel contents and cations with channel wall  

SciTech Connect (OSTI)

Gramicidin D (gD) is a naturally occurring ionophoric antibiotic that forms membrane channels specific for monovalent cations. The crystal structure of the RbCl complex of gD has been determined at 1.14 {angstrom} resolution from low-temperature (100 K) synchrotron-radiation data with a final R of 16%. The structure was refined with anisotropic temperature factors for all non-H atoms and with partial occupancies for many of them. The asymmetric unit in the crystal contains four crystallographically independent molecules that form two right-handed antiparallel double-stranded dimers. There are seven distinct rubidium-binding sites in each dimeric channel. The occupancy factors of Rb cations are between 0.11 and 0.35 and the total ion contents of the two crystallographically independent channels are 1.59 and 1.22 ions, respectively. Although each channel is 'chemically symmetrical', the side-chain conformations, the distributions of rubidium cations and their binding sites in the two independent channels are not. Cations are 'coordinated' by delocalized {pi}-electrons of three to five carbonyl groups that together with peptide backbone chains form the gramicidin channel walls. The water:cation ratio in the channel interior is four or five:one, and five or six waters separate Rb cations during their passage through the channel.

Glówka, M.L.; Olczak, A.; Bojarska, J.; Szczesio, M.; Duax, W.L.; Burkhart, B.M.; Pangborn, W.A.; Langs, D.A.; Wawrzak, Z. (Poland); (NWU); (Hauptman)

2010-03-05T23:59:59.000Z

94

Efficient and simpler method to construct normalized cDNA libraries with improved representations of full-length cDNAs  

DOE Patents [OSTI]

This invention provides a method to normalize a cDNA library comprising: (a) constructing a directionally cloned library containing cDNA inserts wherein the insert is capable of being amplified by polymerase chain reaction; (b) converting a double-stranded cDNA library into single-stranded DNA circles; (c) generating single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) by polymerase chain reaction with appropriate primers; (d) hybridizing the single-stranded DNA circles converted in step (b) with the complementary single-stranded nucleic acid molecules generated in step (c) to produce partial duplexes to an appropriate Cot; and (e) separating the unhybridized single-stranded DNA circles from the hybridized DNA circles, thereby generating a normalized cDNA library. This invention also provides a method to normalize a cDNA library wherein the generating of single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) is by excising cDNA inserts from the double-stranded cDNA library; purifying the cDNA inserts from cloning vectors; and digesting the cDNA inserts with an exonuclease. This invention further provides a method to construct a subtractive cDNA library following the steps described above. This invention further provides normalized and/or subtractive cDNA libraries generated by the above methods.

Soares, Marcelo Bento (New York, NY); Bonaldo, Maria de Fatima (New York, NY)

1998-01-01T23:59:59.000Z

95

The roles of APE1, APE2, DNA polymerase ? and mismatch repair in creating S region DNA breaks during antibody class switch  

Science Journals Connector (OSTI)

...of the cell cycle. antibody class switch|DNA recombination...increases antibody affinity. Class switch recombination (CSR...and the DBL cells showed a greater reduction of CSR. Surprisingly...could be deleterious, given the great amount of reactive oxygen species...

2009-01-01T23:59:59.000Z

96

Photophysical Characterization of a FRET System Using Tailor-Made DNA Oligonucleotide Sequences  

Science Journals Connector (OSTI)

We have carried out a detailed photophysical study of the FRET D/A pair consisting of a carbostyril donor and a Ru(II)bathophenanthroline complex acceptor in double-stranded synthetic DNA. ... Feasibility studies for the FRET system were first carried out in peptides (30, 31) and later also in synthetic DNA (32, 33). ... The unique combination of chemically robust dye-labeled building blocks and remarkable spectroscopic properties of the FRET system prompted us to perform a detailed study concerning synthetic DNA, in which the distance between donor and acceptor was systematically varied by the number of separating base pairs. ...

Roman Flehr; Andrea Kienzler; Willi Bannwarth; Michael U. Kumke

2010-11-29T23:59:59.000Z

97

RADIATION SENSITIVITY & PROCESSING OF DNA DAMAGE FOLLOWING LOW DOSES OF GAMMA-RAY ALPHA PARTICLES & HZE IRRADIATION OF NORMAL DSB REPAIR DEFICIENT CELLS  

SciTech Connect (OSTI)

Non-homologous end joining (NHEJ) predominates in the repair of DNA double strand breaks (DSB) over homologous recombination (HR). NHEJ occurs throughout the cell cycle whereas HR occurs in late S/G2 due to the requirement of a sister chromatid (Rothkamm et al, Mol Cell Biol 23 5706-15 [2003]). To date evidence obtained with DSB repair deficient cells using pulsed-field gel electrophoresis has revealed the major pathway throughout all phases of the cell cycle for processing high dose induced DSBs is NHEJ (Wang et al, Oncogene 20 2212-24 (2001); Pluth et al, Cancer Res. 61 2649-55 [2001]). These findings however were obtained at high doses when on average >> 20-30 DSBs are formed per cell. The contribution of the repair pathways (NHEJ and HR) induced in response to DNA damage during the various phases of the cell cycle may depend upon the dose (the level of initial DSBs) especially since low levels of DSBs are induced at low dose. To date, low dose studies using NHEJ and HR deficient mutants have not been carried out to address this important question with radiations of different quality. The work presented here leads us to suggest that HR plays a relatively minor role in the repair of radiation-induced prompt DSBs. SSBs lead to the induction of DSBs which are associated specifically with S-phase cells consistent with the idea that they are formed at stalled replication forks in which HR plays a major role in repair. That DNA-PKcs is in some way involved in the repair of the precursors to replication-induced DSB remains an open question. Persistent non-DSB oxidative damage also leads to an increase in RAD51 positive DSBs. Both simple and complex non-DSB DNA damage may therefore contribute to indirect DSBs induced by ionising radiation at replication forks.

O'Neil, Peter

2009-05-15T23:59:59.000Z

98

WHERE MULTIFUNCTIONAL DNA REPAIR PROTEINS MEET: MAPPING THE INTERACTION DOMAINS BETWEEN XPG AND WRN  

SciTech Connect (OSTI)

The rapid recognition and repair of DNA damage is essential for the maintenance of genomic integrity and cellular survival. Multiple complex and interconnected DNA damage responses exist within cells to preserve the human genome, and these repair pathways are carried out by a specifi c interplay of protein-protein interactions. Thus a failure in the coordination of these processes, perhaps brought about by a breakdown in any one multifunctional repair protein, can lead to genomic instability, developmental and immunological abnormalities, cancer and premature aging. This study demonstrates a novel interaction between two such repair proteins, Xeroderma pigmentosum group G protein (XPG) and Werner syndrome helicase (WRN), that are both highly pleiotropic and associated with inherited genetic disorders when mutated. XPG is a structure-specifi c endonuclease required for the repair of UV-damaged DNA by nucleotide excision repair (NER), and mutations in XPG result in the diseases Xeroderma pigmentosum (XP) and Cockayne syndrome (CS). A loss of XPG incision activity results in XP, whereas a loss of non-enzymatic function(s) of XPG causes CS. WRN is a multifunctional protein involved in double-strand break repair (DSBR), and consists of 3’–5’ DNA-dependent helicase, 3’–5’ exonuclease, and single-strand DNA annealing activities. Nonfunctional WRN protein leads to Werner syndrome, a premature aging disorder with increased cancer incidence. Far Western analysis was used to map the interacting domains between XPG and WRN by denaturing gel electrophoresis, which separated purifi ed full length and recombinant XPG and WRN deletion constructs, based primarily upon the length of each polypeptide. Specifi c interacting domains were visualized when probed with the secondary protein of interest which was then detected by traditional Western analysis using the antibody of the secondary protein. The interaction between XPG and WRN was mapped to the C-terminal region of XPG as well as the C-terminal region of WRN. The physical interaction between XPG and WRN links NER, (made evident by the disease XP) with DSBR, which imparts additional knowledge of the overlapping nature of these two proteins and the previously distinct DNA repair pathways they are associated with. Since genomic integrity is constantly threatened by both endogenous and exogenous (internal and external) damage, understanding the roles of these proteins in coordinating DNA repair processes with replication will signifi cantly further understanding how defects instigate physiological consequences in response to various DNA damaging sources. This ultimately contributes to our understanding of cancer and premature aging.

Rangaraj, K.; Cooper, P.K.; Trego, K.S.

2009-01-01T23:59:59.000Z

99

Radiosensitization of MDA-MB-231 breast tumor cells by adenovirus-mediated overexpression of a fragment of the XRCC4 protein  

Science Journals Connector (OSTI)

...Repair of DNA double strand breaks by non-homologous end joining. Biochimie 2003;85:1161-73. 9 El-Khamisy SF, Saifi GM, Weinfeld M, et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1...

Kara R. Jones; David A. Gewirtz; Steven M. Yannone; Shaoming Zhou; David G. Schatz; Kristoffer Valerie; Lawrence F. Povirk

2005-10-01T23:59:59.000Z

100

DNA  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

directed directed assembly of nanoparticle linear structure for nanophotonics Baoquan Ding, a͒ Stefano Cabrini, b͒ Ronald N. Zuckermann, and Jeffrey Bokor Molecular Foundry, Lawrence Berkeley National Laboratory, 1 Cyclotron Rd., Berkeley, California 94720 ͑Received 17 June 2008; accepted 22 December 2008; published 2 February 2009͒ Assemblies of metal nanospheres have shown interesting properties for nanophotonics. Here the authors describe a method to use robust DNA multicrossover molecules to organize Au nanoparticles with different sizes to form well controlled linear chain structures with desired distance below 10 nm between the particles. Au particles with only one piece of DNA attached are purified individually. Three different sizes DNA-Au conjugates then hybridize with five other DNA strands to form the stiff triple crossover ͑TX͒ motif. The linkage position

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


101

Protective effects of pulmonary epithelial lining fluid on oxidative stress and DNA single-strand breaks caused by ultrafine carbon black, ferrous sulphate and organic extract of diesel exhaust particles  

SciTech Connect (OSTI)

Pulmonary epithelial lining fluid (ELF) is the first substance to make contact with inhaled particulate matter (PM) and interacts chemically with PM components. The objective of this study was to determine the role of ELF in oxidative stress, DNA damage and the production of proinflammatory cytokines following physicochemical exposure to PM. Ultrafine carbon black (ufCB, 15 nm; a model carbonaceous core), ferrous sulphate (FeSO{sub 4}; a model transition metal) and a diesel exhaust particle (DEP) extract (a model organic compound) were used to examine the acellular oxidative potential of synthetic ELF and non-ELF systems. We compared the effects of exposure to ufCB, FeSO{sub 4} and DEP extract on human alveolar epithelial Type II (A549) cells to determine the levels of oxidative stress, DNA single-strand breaks and interleukin-8 (IL-8) production in ELF and non-ELF systems. The effects of ufCB and FeSO{sub 4} on the acellular oxidative potential, cellular oxidative stress and DNA single-strand breakage were mitigated significantly by the addition of ELF, whereas there was no decrease following treatment with the DEP extract. There was no significant effect on IL-8 production following exposure to samples that were suspended in ELF/non-ELF systems. The results of the present study indicate that ELF plays an important role in the initial defence against PM in the pulmonary environment. Experimental components, such as ufCB and FeSO{sub 4}, induced the production of oxidative stress and led to DNA single-strand breaks, which were moderately prevented by the addition of ELF. These findings suggest that ELF plays a protective role against PM-driven oxidative stress and DNA damage. -- Highlights: ? To determine the role of ELF in ROS, DNA damage and IL-8 after exposure to PM. ? ufCB, FeSO{sub 4} and DEP extract were used to examine the protective effects of ELF. ? PM-driven oxidative stress and DNA single-strand breakage were mitigated by ELF. ? The findings suggest that ELF has a protective role against PM. ? The synthetic ELF system could reduce the use of animals in PM-driven ROS testing.

Chuang, Hsiao-Chi [School of Respiratory Therapy, College of Medicine, Taipei Medical University, Taipei, Taiwan (China) [School of Respiratory Therapy, College of Medicine, Taipei Medical University, Taipei, Taiwan (China); Division of Pulmonary Medicine, Department of Internal Medicine, Shuang Ho Hospital, Taipei Medical University, Taipei, Taiwan (China); Cheng, Yi-Ling; Lei, Yu-Chen [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China)] [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Chang, Hui-Hsien [Institute of Environmental Health, College of Public Health, National Taiwan University, Taipei, Taiwan (China)] [Institute of Environmental Health, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Cheng, Tsun-Jen, E-mail: tcheng@ntu.edu.tw [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China) [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Department of Public Health, College of Public Health, National Taiwan University, Taipei, Taiwan (China)

2013-02-01T23:59:59.000Z

102

Photoaffinity Labeling of Mouse Fibroblast Enzymes by a Base Excision Repair Intermediate: New Evidence on the Role of PARP-1 in DNA Repair  

SciTech Connect (OSTI)

To examine mammalian base excision repair (BER) enzymes interacting with DNA intermediates formed during BER, we used a novel photoaffinity labeling probe and mouse embryonic fibroblast (MEF) crude extract. The probe was formed in situ, using an end-labeled oligonucleotide containing a synthetic abasic site; this site was incised by AP endonuclease creating a nick with 3' hydroxyl and 5' reduced sugar phosphate groups at the margins, and then a dNMP carrying a photoreactive adduct was introduced at the 3' hydroxyl group. With near UV-light exposure (312nm) of the extract-probe mixture, only six proteins were strongly labeled, including poly (ADP-ribose) polymerase (PARP-1) and the well-known BER participants flap endonuclease (FEN-1), DNA polymerase b (b-pol), and AP endonuclease (APE). The amount of probe crosslinked to PARP-1 was greater than that crosslinked to the other proteins. The specificity of PARP-1 labeling was examined by competition experiments involving various oligonucleotide competitors; competition of labeling by the probe was much greater for the BER intermediates tested than for normal double-stranded DNA. The specificity of PARP-1 labeling also was examined using DNA probes with alternate structures; PARP-1 labeling was stronger with a DNA oligomer representing a BER intermediate than with a molecule representing a nick in double-stranded DNA. These results identifying interaction of PARP-1 with a BER intermediate are discussed in light of PARP-1's role in mammalian BER.

Lavrik, Olga I.(National Institute of Environmental Health Sciences) [National Institute of Environmental Health Sciences; Prasad, Rajendra (National Institute of Environmental Health Sciences) [National Institute of Environmental Health Sciences; Sobol, Robert W.(National Institute of Environmental Health Sciences) [National Institute of Environmental Health Sciences; Horton, Julie K.(National Institute of Environmental Health Sciences) [National Institute of Environmental Health Sciences; Ackerman, Eric J.(BATTELLE (PACIFIC NW LAB)) [BATTELLE (PACIFIC NW LAB); Wilson, Samuel H.(National Institute of Environmental Health Sciences) [National Institute of Environmental Health Sciences

2001-07-06T23:59:59.000Z

103

BioMed Central Page 1 of 10  

E-Print Network [OSTI]

of neocarzinostatin-induced DNA double-strand breaks. Background Ionizing radiation induces multiple lesions in cell) in proportion to the radiation dose. Among the enzymes that have evolved for the repair of radiation damage-B activation and proper management of the oxidative stress inherent in radiation exposure. DNA

Boyer, Edmond

104

ATR Affecting Cell Radiosensitivity Is Dependent on Homologous Recombination Repair but Independent of Nonhomologous End Joining  

Science Journals Connector (OSTI)

...Toxicology, Maine Center for Toxicology and Environmental Health, Portland, ME, University of Bridgeport, Bridgeport, CT...DNA double strand breaks (DSBs) formation, one of the most dangerous types of DNA damage. The hMRE11-RAD50-NBS1 protein complex...

Hongyan Wang; Huichen Wang; Simon N. Powell; George Iliakis; and Ya Wang

2004-10-01T23:59:59.000Z

105

Structural biology and bioinformatics in drug design: opportunities and challenges for target identification and lead discovery  

Science Journals Connector (OSTI)

...by charged and polar patches. Figure 7 The human...essential for normal DNA repair, there is an advantage...structure determination pipeline. Proc. Natl Acad...double-strand-break-repair mutant mammalian cells...gene and its role in DNA repair and V(D)J recombination...

2006-01-01T23:59:59.000Z

106

Low Dose Radiation Research Program: Quantification of Repair of  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Quantification of Repair of Low-Dose-Induced DNA Double-Strand Quantification of Repair of Low-Dose-Induced DNA Double-Strand Breaks in Diploid Human Cells Authors: David Schild,1 and Larry H. Thompson,2 Institutions: 1Life Sciences Division, Lawrence Berkeley National Laboratory; and 2BBR Program, Lawrence Livermore National Laboratory Double-strand breaks (DSBs) are the biochemical lesions of primary concern in radiation related health effects. Compelling evidence from rodent and chicken model systems indicates that homologous recombinational repair (HRR) plays an essential role for cell viability in the repair of spontaneous DSBs arising during DNA replication and an important role in the repair of IR-induced DSBs. IR-induced DSBs are also repaired by error-prone nonhomologous end joining (NHEJ). Using hTERT-immortalized

107

DNA Vaccination Can Break Immunological Tolerance to PrP in Wild-Type Mice and Attenuates Prion Disease after Intracerebral Challenge  

Science Journals Connector (OSTI)

...Xiang, R., H. N. Lode, T. H. Chao, J. M. Ruehlmann, C. S. Dolman, F. Rodriguez, J. L. Whitton, W. W. Overwijk, N. P. Restifo, and R. A. Reisfeld. 2000. An autologous oral DNA vaccine protects against murine melanoma. Proc...

Natalia Fernandez-Borges; Alejandro Brun; J. Lindsay Whitton; Beatriz Parra; Fayna Diaz-San Segundo; Francisco J. Salguero; Juan M. Torres; Fernando Rodriguez

2006-10-15T23:59:59.000Z

108

Backbone-induced effects in the charge transport efficiency of synthetic DNA  

Science Journals Connector (OSTI)

We report on a theoretical study pointing out the fundamental role of the backbone energetics in the charge transfer efficiency of polyG–polyC and polyA–polyT chains. The double-strand DNA (ds-DNA) molecules are modelled in terms of a single channel effective Hamiltonian. By introducing a two-step renormalization scheme analytical results for the energy spectrum and transmission coefficient are derived, and current–voltage characteristics are numerically investigated. Significant modulations of the main I–V features (voltage threshold, current amplitude) are reported and their physical origin is traced back to backbone-induced electronic effects. These results open new perspectives for experimental work aimed at controlling the charge transfer efficiency in nanodevices based on synthetic DNA.

Enrique Maciá; Stephan Roche

2006-01-01T23:59:59.000Z

109

in this issue nature methods | VOL.9 NO.10 | OCTOBER 2012  

E-Print Network [OSTI]

difficult. Mirny, Dekker and colleagues describe a pipeline to normalize Hi-C data (which provides an all insertions and deletions during the repair of an endonuclease-mediated DNA double-strand break (DSB) is increasingly exploited to carry out precise gene disruption. However, the DSB can be precisely repaired and re

Cai, Long

110

Automated analysis of time-lapse fluorescence microscopy images: from live cell images to intracellular foci  

Science Journals Connector (OSTI)

......varying sizes and shapes. The segmentation pipeline consists of three steps: (i) detection...image stack. In the first step of the pipeline, a marker is identified for each potential...related to the DNA double-strand break repair kinetics. For example, we found in normal......

Oleh Dzyubachyk; Jeroen Essers; Wiggert A. van Cappellen; Céline Baldeyron; Akiko Inagaki; Wiro J. Niessen; Erik Meijering

2010-10-01T23:59:59.000Z

111

Template Role of Double-Stranded RNA in Tombusvirus Replication  

Science Journals Connector (OSTI)

...repRNA). Briefly, the method for the CFE assay is as follows: in vitro TBSV replication assays were performed by using 2 mul of CFE, 0.25 mug DI-72 (+)repRNA T7-made...32P]UTP in a 20-mul total volume. The CFE assay was performed at 25C for 3 h and stopped...

Nikolay Kovalev; Judit Pogany; Peter D. Nagy

2014-03-05T23:59:59.000Z

112

Recognition of Double-Stranded RNA by Proteins  

E-Print Network [OSTI]

. Stephens Peter A. Beal University of Utah, Department of Chemistry, 315 South 1400 East, Room 2020, Salt level. In contrast, Correspondence to: Peter A. Beal; email: beal@chemistry. utah.edu). Contract grant

Beal, Peter A.

113

The effect of magnesium ions on dielectric relaxation in semidilute DNA aqueous solutions  

E-Print Network [OSTI]

The effect of magnesium ion Mg2+ on the dielectric relaxation of semidilute DNA aqueous solutions has been studied by means of dielectric spectroscopy. Two dielectric relaxations in the 100 Hz - 100 MHz frequency range, originating in the motion of DNA counterions, were probed as a function of DNA and Mg2+ ion concentration in added MgCl2 salt. The high-frequency mode in the MHz range, stemming from the structural organization of the DNA network, reveals de Gennes-Pfeuty-Dobrynin correlation length as the pertinent fundamental length scale for sufficiently low concentration of added salt. No relaxation fingerprint of DNA denaturation bubbles, leading to exposed hydrophobic core scaling, was detected at low DNA concentrations, thus indicating an increased stability of the double-stranded conformation as compared to the case of DNA solutions with univalent counterions. The presence of Mg2+ does not change qualitatively the low frequency mode in the kHz range correlated with single DNA conformational properties....

Grgi?in, Danijel; Ivek, Tomislav; Tomi?, Silvia; Podgornik, Rudi

2013-01-01T23:59:59.000Z

114

Heat induces gene amplification in cancer cells  

SciTech Connect (OSTI)

Highlights: Black-Right-Pointing-Pointer This study discovered that heat exposure (hyperthermia) results in gene amplification in cancer cells. Black-Right-Pointing-Pointer Hyperthermia induces DNA double strand breaks. Black-Right-Pointing-Pointer DNA double strand breaks are considered to be required for the initiation of gene amplification. Black-Right-Pointing-Pointer The underlying mechanism of heat-induced gene amplification is generation of DNA double strand breaks. -- Abstract: Background: Hyperthermia plays an important role in cancer therapy. However, as with radiation, it can cause DNA damage and therefore genetic instability. We studied whether hyperthermia can induce gene amplification in cancer cells and explored potential underlying molecular mechanisms. Materials and methods: (1) Hyperthermia: HCT116 colon cancer cells received water-submerged heating treatment at 42 or 44 Degree-Sign C for 30 min; (2) gene amplification assay using N-(phosphoacetyl)-L-aspartate (PALA) selection of cabamyl-P-synthetase, aspartate transcarbarmylase, dihydro-orotase (cad) gene amplified cells; (3) southern blotting for confirmation of increased cad gene copies in PALA-resistant cells; (4) {gamma}H2AX immunostaining to detect {gamma}H2AX foci as an indication for DNA double strand breaks. Results: (1) Heat exposure at 42 or 44 Degree-Sign C for 30 min induces gene amplification. The frequency of cad gene amplification increased by 2.8 and 6.5 folds respectively; (2) heat exposure at both 42 and 44 Degree-Sign C for 30 min induces DNA double strand breaks in HCT116 cells as shown by {gamma}H2AX immunostaining. Conclusion: This study shows that heat exposure can induce gene amplification in cancer cells, likely through the generation of DNA double strand breaks, which are believed to be required for the initiation of gene amplification. This process may be promoted by heat when cellular proteins that are responsible for checkpoints, DNA replication, DNA repair and telomere functions are denatured. To our knowledge, this is the first study to provide direct evidence of hyperthermia induced gene amplification.

Yan, Bin, E-mail: yanbin@mercyhealth.com [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States) [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States); Mercy Cancer Center, Mercy Medical Center-North Iowa, Mason City, IA 50401 (United States); Ouyang, Ruoyun [Department of Respiratory Medicine, The Second Xiangya Hospital, Xinagya School of Medicine, Central South University, Changsha 410011 (China)] [Department of Respiratory Medicine, The Second Xiangya Hospital, Xinagya School of Medicine, Central South University, Changsha 410011 (China); Huang, Chenghui [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States) [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States); Department of Oncology, The Third Xiangya Hospital, Xinagya School of Medicine, Central South University, Changsha 410013 (China); Liu, Franklin [Department of Radiation Oncology, Duke University Medical Center, Durham, NC 27710 (United States)] [Department of Radiation Oncology, Duke University Medical Center, Durham, NC 27710 (United States); Neill, Daniel [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States)] [Department of Radiation Oncology, University of Mississippi Medical Center, Jackson, MS 39213 (United States); Li, Chuanyuan [Dermatology, Duke University Medical Center, Durham, NC 27710 (United States)] [Dermatology, Duke University Medical Center, Durham, NC 27710 (United States); Dewhirst, Mark [Department of Radiation Oncology, Duke University Medical Center, Durham, NC 27710 (United States)] [Department of Radiation Oncology, Duke University Medical Center, Durham, NC 27710 (United States)

2012-10-26T23:59:59.000Z

115

THE ROLE OF SYNTHETIC DNA IN THE PREPARATION OF STRUCTURAL GENES CODING FOR PROTEINS  

Science Journals Connector (OSTI)

Publisher Summary This chapter discusses the role of synthetic DNA in the preparation of structural genes coding for proteins. One of the key steps in the production of proteins by recombinant DNA technology is the preparation of structural genes coding for the desired proteins. There may be two approaches to this goal: (1) artificial gene synthesis and (2) a combination of cloned cDNA sequences and synthetic DNAs. The method of artificial gene synthesis for the preparation of artificial genes was developed for the synthesis of genes for tRNAs in the late 1960s. The approach of combination of cloned cDNA sequences and synthetic DNA has been developed for the preparation of a gene coding for the human growth hormone. The chapter describes an alternative approach for the synthesis of polydeoxyribonucleotides with defined sequences longer than those accessible by conventional chemical methods. Recent advances in the chemical synthesis of oligonucleotides help to synthesize single-stranded oligonucleotides of up to 40 bases in length, rapidly. It is now possible to synthesize double-stranded DNA fragments using DNA polymerase I in the presence of four deoxynucleoside triphosphosphates.

John J. Rossi; Ryszard Kierzek; Ting Huang; Peter Walker; Keiichi Itakura

1982-01-01T23:59:59.000Z

116

Breaking Earth Poems  

E-Print Network [OSTI]

CALIFORNIA RIVERSIDE Breaking Earth Poems A Thesis submittedFestival……………………………………………………………………..…..14 Earth Against Mylittle else in their hands. Earth Against My Back I lay in

Hernandez, Scott Mcnaul

2012-01-01T23:59:59.000Z

117

Free energy landscape and characteristic forces for the initiation of DNA unzipping  

E-Print Network [OSTI]

DNA unzipping, the separation of its double helix into single strands, is crucial in modulating a host of genetic processes. Although the large-scale separation of double-stranded DNA has been studied with a variety of theoretical and experimental techniques, the minute details of the very first steps of unzipping are still unclear. Here, we use atomistic molecular dynamics (MD) simulations, coarse-grained simulations and a statistical-mechanical model to study the initiation of DNA unzipping by an external force. The calculation of the potential of mean force profiles for the initial separation of the first few terminal base pairs in a DNA oligomer reveal that forces ranging between 130 and 230 pN are needed to disrupt the first base pair, values of an order of magnitude larger than those needed to disrupt base pairs in partially unzipped DNA. The force peak has an "echo," of approximately 50 pN, at the distance that unzips the second base pair. We show that the high peak needed to initiate unzipping derives from a free energy basin that is distinct from the basins of subsequent base pairs because of entropic contributions and we highlight the microscopic origin of the peak. Our results suggest a new window of exploration for single molecule experiments.

Ahmet Mentes; Ana Maria Florescu; Elizabeth Brunk; Jeff Wereszczynski; Marc Joyeux; Ioan Andricioaei

2015-01-27T23:59:59.000Z

118

Mass determination of megadalton-DNA Electrospray Ions usingCharge Detection Mass Spectrometry  

SciTech Connect (OSTI)

Charge detection mass spectrometry (CD-MS) has been used to determine the mass of double-stranded, circular DNA and single-stranded, circular DNA in the range of 2500 to 8000 base pairs (1.5-5.0 MDa). Simultaneous measurement of the charge and velocity of an electrostatically accelerated ion allows a mass determination of the ion, with instrument calibration determined independently of samples. Positive ion mass spectra of electrosprayed commercial DNA samples supplied in tris(hydroxymethyl)ethylenediamine tetraacetic acid buffer, diluted in 50 vol. percent acetonitrile, were obtained without cleanup of the sample. ACD mass spectrum constructed from 3000 ion measurements takes 10 min to acquire and yields the DNA molecular mass directly (mass resolution = 6). The data collected represent progress toward a more automatable alternative to sizing of DNA by gel electrophoresis. In addition to the mass spectra, CD-MS generates charge versus mass plots, which provide another means to investigate the creation and fate of large electrospray ions.

Schultz, Jocelyn C.; Hack, Christopher; Benner, Henry W.

1997-10-01T23:59:59.000Z

119

Free energy landscape and characteristic forces for the initiation of DNA unzipping  

E-Print Network [OSTI]

DNA unzipping, the separation of its double helix into single strands, is crucial in modulating a host of genetic processes. Although the large-scale separation of double-stranded DNA has been studied with a variety of theoretical and experimental techniques, the minute details of the very first steps of unzipping are still unclear. Here, we use atomistic molecular dynamics (MD) simulations, coarse-grained simulations and a statistical-mechanical model to study the initiation of DNA unzipping by an external force. The calculation of the potential of mean force profiles for the initial separation of the first few terminal base pairs in a DNA oligomer reveal that forces ranging between 130 and 230 pN are needed to disrupt the first base pair, values of an order of magnitude larger than those needed to disrupt base pairs in partially unzipped DNA. The force peak has an "echo," of approximately 50 pN, at the distance that unzips the second base pair. We show that the high peak needed to initiate unzipping derives...

Mentes, Ahmet; Brunk, Elizabeth; Wereszczynski, Jeff; Joyeux, Marc; Andricioaei, Ioan

2015-01-01T23:59:59.000Z

120

Oligonucleotide Assembly in Yeast to Produce Synthetic DNA Fragments  

Science Journals Connector (OSTI)

The yeast Saccharomyces cerevisiae...can take up and assemble at least 38 overlapping single-stranded oligonucleotides and a linear double-stranded vector in one transformation event. These oligonucleotides can o...

Daniel G. Gibson

2012-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


121

Nanowire Micronetworks from Carbon-Black Nanoparticles | Advanced Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

A Key Step in Repairing DNA Double-Strand Breaks A Key Step in Repairing DNA Double-Strand Breaks An X-ray Rainbow An Insulating Breakthrough Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed Nanowire Micronetworks from Carbon-Black Nanoparticles JANUARY 11, 2007 Bookmark and Share Fig. 1. Diagram showing CB segregation to triple junctions during press sintering. Inset: USAXS image acquired from a press-sintered CB/PMMA sample with 1% CB mass fraction. Self-assembly is likely to play a decisive role in producing nanoscale elements for three dimensional (3D) electronic and nanoscale electro-mechanical systems. Until now, however, the difficult problem of fabricating a complex, interconnected 3D system of conductive nanoscale

122

Global methylation responses to low dose radiation exposure  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

methylation responses to low dose radiation exposure methylation responses to low dose radiation exposure Pamela J Sykes, Michelle R Newman, Benjamin J Blyth and Rebecca J Ormsby Haematology and Genetic Pathology, Flinders University and Medical Centre, Flinders Centre for Cancer Prevention and Control, Bedford Park, Adelaide, South Australia 5042 Australia. (pam.sykes@flinders.edu.au). Our goal is to study the mechanisms involved in biological responses to low doses of radiation in vivo in the dose range that is relevant to population and occupational exposures. At high radiation doses, DNA double-strand breaks are considered the critical lesion underlying the initiation of radiation-induced carcinogenesis. However, at the very low radiation doses relevant for the general public, the induction of DNA double-strand breaks

123

DNA Damage and Repair in Translational Oncology: An Overview  

Science Journals Connector (OSTI)

...is a molecular sensor of DNA breaks that facilitates DNA repair and controls genomic stability and apoptosis. PARP inhibitors...PARP-1 inhibitor NSC 737664 entered the NCI clinical development pipeline, we initiated a program to model pharmacodynamic responses...

Eddie Reed

2010-09-15T23:59:59.000Z

124

Will the Web break?  

Science Journals Connector (OSTI)

...Discussion 1003 51 Discussion Meeting Issue Web science: a new frontier organized and edited...Wendy Hall and James A. Hendler Will the Web break? Jonathan Zittrain * e-mail: zittrain...contribution of 15 to a Discussion Meeting Issue Web science: a new frontier . What is the Web...

2013-01-01T23:59:59.000Z

125

Design of a combinatorial dna microarray for protein-dnainteraction studies  

SciTech Connect (OSTI)

Background: Discovery of precise specificity oftranscription factors is an important step on the way to understandingthe complex mechanisms of gene regulation in eukaryotes. Recently,doublestranded protein-binding microarrays were developed as apotentially scalable approach to tackle transcription factor binding siteidentification. Results: Here we present an algorithmic approach toexperimental design of a microarray that allows for testing fullspecificity of a transcription factor binding to all possible DNA bindingsites of a given length, with optimally efficient use of the array. Thisdesign is universal, works for any factor that binds a sequence motif andis not species-specific. Furthermore, simulation results show that dataproduced with the designed arrays is easier to analyze and would resultin more precise identification of binding sites. Conclusion: In thisstudy, we present a design of a double stranded DNA microarray forprotein-DNA interaction studies and show that our algorithm allowsoptimally efficient use of the arrays for this purpose. We believe such adesign will prove useful for transcription factor binding siteidentification and other biological problems.

Mintseris, Julian; Eisen, Michael B.

2006-07-07T23:59:59.000Z

126

SuperBreak: Using Interactivity to Enhance Ergonomic Typing Breaks  

E-Print Network [OSTI]

SuperBreak: Using Interactivity to Enhance Ergonomic Typing Breaks Dan Morris, A.J. Bernheim Brush Repetitive strain injuries and ergonomics concerns have become increasingly significant health issues software mechanisms exist for managing ergonomics; the most well-known are "break-reminder" packages

Rajamani, Sriram K.

127

$R$-Parity Breaking Phenomenology  

E-Print Network [OSTI]

We review various features of the $R$-parity breaking phenomenology, with particular attention to the low energy observables, and to the patterns of the $R$-parity breaking interactions that arise in Grand Unified models.

Francesco Vissani

1996-03-11T23:59:59.000Z

128

Models of Dynamical Supersymmetry Breaking  

E-Print Network [OSTI]

We review a class of models of dynamical supersymmetry breaking, and give a unified description of these models.

Lisa Randall

1997-06-23T23:59:59.000Z

129

Breaking Down the Barriers  

Broader source: Energy.gov (indexed) [DOE]

Breaking Down the Barriers Breaking Down the Barriers Engaging Agency Legal Resources to be Part of the Solution Daniel Gore US Coast Guard Energy Manager X ESPC ISC Kodiak ESPC/UESC Unit Contract Type Coast Guard Alternatively Financed Project Status Estimated Contract Value (Millions) Under Consideration Initial Proposal Delayed by lack of Contracting Officer or Champion Detailed Design Study Recently Awarded TRACEN Cape May ESPC X TRACEN Petaluma PPA X X ISC San Pedro UESC X X CG Academy ESPC X TRACEN Cape May UESC X Air Station Borenquin ESPC X X Sector New York (3 sites) ESPC X X CG Yard (BAMF) ESPC X E-City ESPC X West Coast - 9 Sites ESPC X Five Essentials for Alt. Financed Project * Site approval * Technical Champion * Contracting Officer * Financial Analyst * Legal Support

130

Energy Loss by Breaking waves  

Science Journals Connector (OSTI)

Observations of the frequency of wind wave breaking in deep water are combined with laboratory estimates of the rate of energy loss a from single breaking wave to infer the net rate of energy transfer to the mixed layer from breaking waves, as a ...

S. A. Thorpe

1993-11-01T23:59:59.000Z

131

End group characterization in DNA of thymocytes after low doses of ionizing radiation  

Science Journals Connector (OSTI)

Investigations into the configuration of the radiation induced strand breaks in the low dose range are presented. DNA sections containing the radiation induced strand breaks were separated from the undamaged s...

Th. Coquerelle; C. Sexauer

1977-01-01T23:59:59.000Z

132

Cationic Lipid-Nucleic Acid Complexes for Gene Delivery And Silencing: Pathways And Mechanisms for Plasmid Dna And Sirna  

SciTech Connect (OSTI)

Motivated by the promises of gene therapy, there is great interest in developing non-viral lipid-based vectors for therapeutic applications due to their low immunogenicity, low toxicity, ease of production, and the potential of transferring large pieces of DNA into cells. In fact, cationic liposome (CL) based vectors are among the prevalent synthetic carriers of nucleic acids (NAs) currently used in gene therapy clinical trials worldwide. These vectors are studied both for gene delivery with CL-DNA complexes and gene silencing with CL-siRNA (short interfering RNA) complexes. However, their transfection efficiencies and silencing efficiencies remain low compared to those of engineered viral vectors. This reflects the currently poor understanding of transfection-related mechanisms at the molecular and self-assembled levels, including a lack of knowledge about interactions between membranes and double stranded NAs and between CL-NA complexes and cellular components. In this review we describe our recent efforts to improve the mechanistic understanding of transfection by CL-NA complexes, which will help to design optimal lipid-based carriers of DNA and siRNA for therapeutic gene delivery and gene silencing.

Ewert, K.K.; Zidovska, A.; Ahmad, A.; Bouxsein, N.F.; Evans, H.M.; McAllister, C.S.; Samuel, C.E.; Safinya, C.R.; /SLAC

2012-07-17T23:59:59.000Z

133

Nanotechnology with DNA DNA Nanodevices  

E-Print Network [OSTI]

Nanotechnology with DNA DNA Nanodevices Friedrich C. Simmel* and Wendy U. Dittmer A DNA actuator. Introduction.............285 2. Overview: DNA Nanotechnology.......285 3. Prototypes of Nanomechanical DNA overview of DNA nanotechnology as a whole is given. The most important properties of DNA molecules

Ludwig-Maximilians-Universität, München

134

Interpretation of Sucrose Gradient Sedimentation Pattern of Deoxyribonucleic Acid Fragments Resulting from Random Breaks  

Science Journals Connector (OSTI)

...of the calculated number of nicks per strand of DNA with the known...of the calculated number of nicks per strand of DNA with the known...break locations. The figure of merit suggested by Mar- salgia...X) have varying numbers of nicks per strand. The results seem...

Samuel Litwin; Ezra Shahn; Andrzej W. Kozinski

1969-07-01T23:59:59.000Z

135

Electroweak Breaking in Supersymmetric Models  

E-Print Network [OSTI]

We discuss the mechanism for electroweak symmetry breaking in supersymmetric versions of the standard model. After briefly reviewing the possible sources of supersymmetry breaking, we show how the required pattern of symmetry breaking can automatically result from the structure of quantum corrections in the theory. We demonstrate that this radiative breaking mechanism works well for a heavy top quark and can be combined in unified versions of the theory with excellent predictions for the running couplings of the model. (To be published in ``Perspectives in Higgs Physics'', G. Kane editor.)

L. E. Ibanez; G. G. Ross

1992-04-01T23:59:59.000Z

136

Damage of supercoiled DNA by an ultrafast laser-driven electron x-ray source  

Science Journals Connector (OSTI)

Using magnetic fields to differentiate the effects of electrons and x-rays, it was discovered that single strand breaks in supercoiled DNA were

Shan, Fang; Carter, Joshua D; Guo, Ting

2007-01-01T23:59:59.000Z

137

Vanadium catalysts break down biomass for fuels  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Vanadium catalysts break down biomass into useful components Breaking down biomass could help in converting biomass to fuels. March 26, 2012 Biomass Due to diminishing petroleum...

138

Breaking down the bubbly | EMSL  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

down the bubbly Breaking down the bubbly Micromodels redefine how bubbles characterize CO2 gas flow No, it's not a Lego: This Lab-on-a-Chip micromodel (left) was designed to...

139

Molecular Mechanisms of Anthrax Toxin Assembly and Transport  

E-Print Network [OSTI]

LF N ?1/?1-replacement synthetic DNA fragments were ligatedDNA fragment. These synthetic DNA fragments were ligated viaµM each) to make the synthetic double-stranded DNA fragment.

Feld, Geoffrey Keith

2012-01-01T23:59:59.000Z

140

NERSC's Hopper Breaks Petaflops Barrier  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

NERSC's Hopper Breaks NERSC's Hopper Breaks Petaflops Barrier NERSC's Hopper Breaks Petaflops Barrier Ranks 5th in the World November 14, 2010 Media Contact: Jon Bashor, jbashor@lbl.gov, 510-486-5849 hopper1.jpg NERSC's Cray XE6-Hopper BERKELEY, Calif.-The Department of Energy's National Energy Research Scientific Computing Center (NERSC), already one of the world's leading centers for scientific productivity, is now home to the fifth most powerful supercomputer in the world and the second most powerful in the United States, according to the latest edition of the TOP500 list, the definitive ranking of the world's top computers NERSC's newest supercomputer, a 153,408 processor-core Cray XE6 system, posted a performance of 1.05 petaflops (quadrillions of calculations per second) running the Linpack benchmark. In keeping with NERSC's tradition of

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141

Chiral Symmetry Breaking in Graphene  

E-Print Network [OSTI]

The question of whether the Coulomb interaction is strong enough to break the sublattice symmetry of un-doped graphene is discussed. We formulate a strong coupling expansion where the ground state of the Coulomb Hamiltonian is found exactly and the kinetic hopping Hamiltonian is treated as a perturbation. We argue that many of the properties of the resulting system would be shared by graphene with a Hubbard model interaction. In particular, the best candidate sublattice symmetry breaking ground state is an antiferromagnetic Mott insulator. We discuss the results of some numerical simulations which indicate that the Coulomb interaction is indeed subcritical. We also point out the curious fact that, if the electron did not have spin degeneracy, the tendency to break chiral symmetry would be much greater and even relatively weak Coulomb interactions would likely gap the spectrum.

Gordon W. Semenoff

2011-08-15T23:59:59.000Z

142

DNA Extraction  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA Extraction DNA Extraction Being able to extract deoxyribonucleic acid (DNA) is important for a number of reasons. By studying DNA, scientists can identify genetic disorders or diseases, and they can also possibly find cures for them by manipulating or experimenting with this DNA. At the Laboratory, researchers have studied DNA to detect biothreat agents in environmental and forensic samples. Scientists also are studying how human DNA may be destroyed by certain types of electromagnetic waves at certain frequencies. Classroom Activity: This activity is about the extraction of DNA from strawberries. Strawberries are a great fruit to use for this lesson because each student can work on his or her own. Strawberries are recommended because they yield more DNA than any other fruit. Strawberries are octoploid, which means that they have eight copies of each

143

Dissection of Double-Stranded RNA Binding Protein B2 from Betanodavirus  

Science Journals Connector (OSTI)

...ahead of print on 21 March 2007. Beau J. Fenner Winnie Goh Jimmy Kwang Corresponding author...Mol. Biol. 279: 1085-1099. 10 Fenner, B. J., Q. Du, W. Goh, R. Thiagarajan...ELISA. J. Fish Dis. 29: 423-432. 11 Fenner, B. J., W. Goh, and J. Kwang...

Beau J. Fenner; Winnie Goh; Jimmy Kwang

2007-03-21T23:59:59.000Z

144

CTRLWORK AND MACBREAKZ ERGONOMIC BREAK REMINDER SOFTWARE  

E-Print Network [OSTI]

CTRLWORK AND MACBREAKZ ERGONOMIC BREAK REMINDER SOFTWARE SOFTWARE FEATURES: Analyzes your for installation assistance. 1. Please uninstall the former ergonomic break software, RSIGuard, if currently instructions on the screen. For more information, contact the UCSB Ergonomics Program at Ergonomics

California at Santa Barbara, University of

145

Hydration properties of natural and synthetic DNA sequences with methylated adenine or cytosine bases in the R.DpnI target and BDNF promoter studied by molecular dynamics simulations  

Science Journals Connector (OSTI)

Adenine and cytosine methylation are two important epigenetic modifications of DNA sequences at the levels of the genome and transcriptome. To characterize the differential roles of methylating adenine or cytosine with respect to their hydration properties we performed conventional MD simulations and free energy perturbation calculations for two particular DNA sequences namely the brain-derived neurotrophic factor (BDNF) promoter and the R.DpnI-bound DNA that are known to undergo methylation of C5-methyl cytosine and N6-methyl adenine respectively. We found that a single methylated cytosine has a clearly favorable hydration free energy over cytosine since the attached methyl group has a slightly polar character. In contrast capping the strongly polar N6 of adenine with a methyl group gives a slightly unfavorable contribution to its free energy of solvation. Performing the same demethylation in the context of a DNA double-strand gave quite similar results for the more solvent-accessible cytosine but much more unfavorable results for the rather buried adenine. Interestingly the same demethylation reactions are far more unfavorable when performed in the context of the opposite (BDNF or R.DpnI target) sequence. This suggests a natural preference for methylation in a specific sequence context. In addition free energy calculations for demethylating adenine or cytosine in the context of B-DNA vs. Z-DNA suggest that the conformational B-Z transition of DNA transition is rather a property of cytosine methylated sequences but is not preferable for the adenine-methylated sequences investigated here.

2014-01-01T23:59:59.000Z

146

Breaking the Biological Barriers to Cellulosic Ethanol, June...  

Energy Savers [EERE]

Breaking the Biological Barriers to Cellulosic Ethanol, June 2006 Breaking the Biological Barriers to Cellulosic Ethanol, June 2006 Breaking the Biological Barriers to Cellulosic...

147

Machine Methods for Identifying DNA Binding Sites  

E-Print Network [OSTI]

of biological and DNA sequence information. Large numbers of genomic and proteomic projects are ongoing transcription of genetic information)? Act as a break point during genetic recombination? These are very High transformation oftranslation #12;Identification of transcription promoter motifs mRNA tRNA protein.� � Human: µ

Kon, Mark

148

“Contextual” Synthetic Lethality and/or Loss of Heterozygosity: Tumor Hypoxia and Modification of DNA Repair  

Science Journals Connector (OSTI)

...Break DNA Damage Signaling and Repair Dorine Rossetto 1 Andrew W...machineries for chromosomal DNA repair. Genes Dev 2004;18:602-16...Plummer R . Perspective on the pipeline of drugs being developed with...hypoxia and modification of DNA repair. Clin Cancer Res 2010;16...

Norman Chan and Robert G. Bristow

2010-09-15T23:59:59.000Z

149

Issues in standard model symmetry breaking  

SciTech Connect (OSTI)

This work discusses the symmetry breaking sector of the SU(2) x U(1) electroweak model. The first two chapters discuss Higgs masses in two simple Higgs models. The author proves low-enery theorems for the symmetry breaking sector: The threshold behavior of gauge-boson scattering is completely determined, whenever the symmetry breaking sector meets certain simple conditions. The author uses these theorems to derive event rates for the superconducting super collider (SSC). The author shows that the SSC may be able to determine whether the interactions of the symmetry breaking sector are strong or weak. 54 refs.

Golden, M.

1988-04-01T23:59:59.000Z

150

System Break-Out Session  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Alkaline Membrane Fuel Cell Alkaline Membrane Fuel Cell Workshop System Break-Out Session Anil Trehan (CommScope) Huyen Dinh (NREL) 5/8 - 5/9/11 Washington DC Current State-of-art Performance * MEA level - 200 mW/cm2 peak power at 0.5 V, 60-65C * System level - Air-cooled 2 kW (net) - Energy density is advantage over incumbent battery and Gensets for stationary application - Significant price advantage over PEM fuel cells * Refer to CellEra and Tokuyama presentations for more details Application - Alcohol fuel small power levels Application Description Power range Military Remote sensor < 10 W Soldier Power 20- 50 W Battery charger 300 W Commercial Consumer electronics < 100 W Recreation < 500 W Commercial Application - Hydrogen Description Power range Back-up 1 - 10 kW Material Handling 1 - 10 kW Transportation

151

Low Dose Radiation Research Program: Research Highlights - 2010  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA Double-Strand Break Repair Capacities Before and After Exposure to Low DNA Double-Strand Break Repair Capacities Before and After Exposure to Low Dose Radiation Immunochemical detection of DSB foci in the nuclei of human fibroblasts. (A) γ-H2AX phospho-serine 139 foci (chromatin marker of DSBs; green). (B) ataxia-telangiectasia mutated phospho-serine 1981 foci (ATM, DNA damage-responsive kinase; red). (C) Merge of images A and B. (White arrows mark large γ-H2AX foci and coincident γ-H2AX/pATM foci that were positively scored; yellow arrows mark small γ-H2AX foci that lack corresponding pATM foci that were not scored.) Enlarge Image Immunochemical detection of DSB foci in the nuclei of human fibroblasts. (A) γ-H2AX phospho-serine 139 foci (chromatin marker of DSBs; green). (B) ataxia-telangiectasia mutated phospho-serine 1981 foci (ATM,

152

Explicit CP Breaking and Electroweak Baryogenesis  

Science Journals Connector (OSTI)

......1996 research-article Articles Explicit CP Breaking and Electroweak Baryogenesis Koichi...We investigate spatial behaviors of the CP-violating angle theta by solving the equation...model in the presence of a small explicit CP breaking delta. The moduli of the two Higgs......

Koichi Funakubo; Akira Kakuto; Shoichiro Otsuki; Fumihiko Toyoda

1996-10-01T23:59:59.000Z

153

Vanadium catalysts break down biomass for fuels  

E-Print Network [OSTI]

- 1 - Vanadium catalysts break down biomass for fuels March 26, 2012 Vanadium catalysts break down biomass into useful components Due to diminishing petroleum reserves, non-food biomass (lignocellulose biomass into high-value commodity chemicals. The journal Angewandte Chemie International Edition published

154

DNA Repair Mechanisms and Their Biological Roles in the Malaria Parasite Plasmodium falciparum  

Science Journals Connector (OSTI)

...Fabre, and M Kupiec. 2013. Effect of nuclear architecture on the efficiency of double-strand...2013. Gene copy-number alterations: a cost-benefit analysis. Cell 152 :394-405...pnas.93.3.1130 . 140. Crabb, BS , and AF Cowman. 1996. Characterization...

Andrew H. Lee; Lorraine S. Symington; David A. Fidock

2014-09-01T23:59:59.000Z

155

Vanadium catalysts break down biomass for fuels  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Vanadium catalysts break down biomass for fuels Vanadium catalysts break down biomass for fuels Vanadium catalysts break down biomass into useful components Breaking down biomass could help in converting biomass to fuels. March 26, 2012 Biomass Due to diminishing petroleum reserves, non-food biomass (lignocellulose) is an attractive alternative as a feedstock for the production of renewable chemicals and fuels. Get Expertise Researcher Susan Hanson Inorganic Isotope & Actinide Chem Email Researcher Ruilian Wu Bioenergy & Environmental Science Email Researcher Louis "Pete" Silks Bioenergy & Environmental Science Email Vanadium is an inexpensive, earth-abundant metal that is well suited for promoting oxidations in air. Vanadium catalysts break down biomass into useful components Due to diminishing petroleum reserves, non-food biomass (lignocellulose) is

156

DNA Activity  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA Activity DNA Activity Name: Sara Location: N/A Country: N/A Date: N/A Question: Is DNA an anion or a cation? I thought since it was negatively charged it was an anion but mt teacher in class today said it was a cation because negatively charged molecules logically migrate to the positively charged plate of the cathode, ie molecules that migrate towards a cathode are cations. Where is the error in my logic or there error in my logic? Replies: DNA is negatively charged due to the phosphate ions present in the ribose-phosphate backbone. It moves towards the positive pole during electrophoresis. The definition kation/anion is confusing because: 1. a cation moves to the cathode 2. the cathode is negative, thus 3. a cation is positive DNA is an anion. The confusion is that a cathode is negative, but a cation is positively charged. For that reason these terms are not generally used in this context.

157

Capillary Break Beneath a Slab: Polyethylene Sheeting over Aggregate...  

Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

Capillary Break Beneath a Slab: Polyethylene Sheeting Over Aggregate Southwestern Pennsylvania PROJECT INFORMATION Project Name: Capillary Break Beneath a Slab: Polyethylene...

158

Breaking the Fuel Cell Cost Barrier | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking the Fuel Cell Cost Barrier Breaking the Fuel Cell Cost Barrier Presentation at the AMFC Workshop, May 8, Arlington, VA amfc050811gottesfeldcellera.pdf More Documents &...

159

Regional Test Centers Breaking Down Barriers to Solar Energy...  

Broader source: Energy.gov (indexed) [DOE]

Regional Test Centers Breaking Down Barriers to Solar Energy Deployment Regional Test Centers Breaking Down Barriers to Solar Energy Deployment September 3, 2014 - 6:16pm Addthis...

160

Airborne observations of the kinematics and statistics of breaking waves  

E-Print Network [OSTI]

v 3 Observations of wave breaking kinematics in fetch-crest length . . . . . C.6 Wave elevation . . . . . . . .breaking waves in the images . . . . . . . . . . . 3.3.3

Kleiss, Jessica M.

2009-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


161

Diachonic DNA Analyses of Animal Breeds and Populations  

E-Print Network [OSTI]

with the animals they breed and raise for sustenance and secondary products such as traction, milk and wool. Since initial domestication, humans have continued to affect and modify these species until the present day. Although much attention has been paid... of Ancient DNA After an organism dies, cell and organelle membranes break down, releasing digestive enzymes into the cellular matrix (Pääbo et al. 1989). These enzymes fragment DNA molecules into short pieces approximately 100–200 bp long (Pääbo et al...

Campana, Michael Gray

2011-04-30T23:59:59.000Z

162

Wave Breaking Dissipation Observed with “SWIFT” Drifters  

Science Journals Connector (OSTI)

Energy dissipation rates during ocean wave breaking are estimated from high-resolution profiles of turbulent velocities collected within 1 m of the surface. The velocity profiles are obtained from a pulse-coherent acoustic Doppler sonar on a wave-...

Jim Thomson

2012-12-01T23:59:59.000Z

163

Ignition with Laser Break-Down  

Science Journals Connector (OSTI)

It is considered that ignition with laser break-down is one of the applications of solid-state lasers. This paper shows basic experimental results indicating the advantages of laser...

Furutani, Hirohide; Saito, Takeshi

164

Transcriptional and Epigenetic Responses of Human Cells to Low Dose  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Transcriptional and Epigenetic Responses of Human Cells to Low Dose Transcriptional and Epigenetic Responses of Human Cells to Low Dose Ionizing Radiation Identified through High Throughput ChIP-Seq Analysis Carl Anderson Brookhaven National Laboratory Abstract The major consequence of human exposures to ionizing radiation (IR) is considered to be an increased incidence of cancer (Brenner et al., 2003). Exposure of cells to 1 Gy of IR produces approximately 40 double-stranded breaks, 1000 single-stranded breaks, and 1000 damaged bases per genome equivalent (Pandita and Richardson, 2009); however, most direct DNA damage is rapidly repaired. Exposure to IR also induces epigenetic changes including both increases and decreases in DNA methylation, and increasing evidence suggests that epigenetic changes can both initiate cancer and

165

This booklet is brought to you by the AAAS/Science Business Office Sponsored by  

E-Print Network [OSTI]

: -Exonuclease binds to an end of double-stranded DNA and degrades one of the strands in a highly processive in their environment. Since humankind achieved an understanding of this muta- genesis process and its power, we have

Napp, Nils

166

Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system  

E-Print Network [OSTI]

The ability to artificially control transcription is essential both to the study of gene function and to the construction of synthetic gene networks with desired properties. Cas9 is an RNA-guided double-stranded DNA nuclease ...

Zhang, Feng

167

Tools for Single-Molecule Sequence Detection and Manipulation.  

E-Print Network [OSTI]

??The ability to strongly and sequence-specifically attach modifications such as fluorophores and haptens to double-stranded DNA is critical to a variety of single-molecule experiments. We… (more)

Zohar, Hagar

2011-01-01T23:59:59.000Z

168

New Mechanisms of Gauge-Mediated Supersymmetry Breaking  

E-Print Network [OSTI]

We review the motivation for Gauge-Mediated Supersymmetry Breaking and discuss some recent advances.

Lisa Randall

1997-06-23T23:59:59.000Z

169

The Effect of Wave Breaking on the Wave Energy Spectrum  

Science Journals Connector (OSTI)

The effect of wave breaking on the wave energy spectral shape is examined. The Stokes wave-breaking criterion is first extended to random waves and a breaking wave model is established in which the elevation of breaking waves is expressed in ...

C. C. Tung; N. E. Huang

1987-08-01T23:59:59.000Z

170

Identification of phosphotyrosine mimetic inhibitors of human tyrosyl-DNA phosphodiesterase I by a novel AlphaScreen high-throughput assay  

Science Journals Connector (OSTI)

...for the repair of topoisomerase I-mediated DNA lesions. DNA Repair (Amst) 2003;2:1087-100. 8 El-Khamisy SF, Saifi GM, Weinfeld M, et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1...

Christophe Marchand; Wendy A. Lea; Ajit Jadhav; Thomas S. Dexheimer; Christopher P. Austin; James Inglese; Yves Pommier; Anton Simeonov

2009-01-01T23:59:59.000Z

171

Conformal Supersymmetry Breaking and Dynamical Tuningof the Cosmological Constant  

SciTech Connect (OSTI)

We propose 'conformal supersymmetry breaking' models, which tightly relate the conformal breaking scale (i.e. R-symmetry breaking scale) and the supersymmetry breaking scale. The both scales are originated from the constant term in the superpotential through the common source of the R-symmetry breaking. We show that dynamical tuning between those mass scales significantly reduces the degree of fine-tuning necessary for generating the almost vanishing cosmological constant.

Ibe, M.; /SLAC; Nakayama, Y.; /UC, Berkeley; Yanagida, T.T.; /Tokyo U.

2008-03-07T23:59:59.000Z

172

Breaking Down Stovepipes | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking Down Stovepipes Breaking Down Stovepipes Breaking Down Stovepipes Coordination with other DOE-wide teams and groups An assigned liaison to DOE's NEPA [National Environmental Policy Act] Six Sigma Team Coordination with the Facilities and Infrastructure Steering Committee: Ten-Year Site Plan requirements, streamlining processes for transferring facilities, work for others Communication across sites, programs, and communities to share lessons learned Kansas City Office coordinating with Oak Ridge and the Office of Environmental Management on the Bannister Federal Complex disposal lessons learned Office of Science sharing lessons on private industry opportunities to expand research capabilities at Oak Ridge and Brookhaven National Lab and on the use of opportunities offered by local government

173

The breaking strain of neutron star crust  

SciTech Connect (OSTI)

Mountains on rapidly rotating neutron stars efficiently radiate gravitational waves. The maximum possible size of these mountains depends on the breaking strain of neutron star crust. With multimillion ion molecular dynamics simulations of Coulomb solids representing the crust, we show that the breaking strain of pure single crystals is very large and that impurities, defects, and grain boundaries only modestly reduce the breaking strain to around 0.1. Due to the collective behavior of the ions during failure found in our simulations, the neutron star crust is likely very strong and can support mountains large enough so that their gTavitational wave radiation could limit the spin periods of some stars and might be detectable in large scale interferometers. Furthermore, our microscopic modeling of neutron star crust material can help analyze mechanisms relevant in Magnetar Giant and Micro Flares.

Kadau, Kai [Los Alamos National Laboratory; Horowitz, C J [INDIANA UNIV

2009-01-01T23:59:59.000Z

174

Modelling oil price volatility with structural breaks  

Science Journals Connector (OSTI)

In this paper, we provide two main innovations: (i) we analyze oil prices of two prominent markets namely West Texas Intermediate (WTI) and Brent using the two recently developed tests by Narayan and Popp (2010) and Liu and Narayan, 2010 both of which allow for two structural breaks in the data series; and (ii) the latter method is modified to include both symmetric and asymmetric volatility models. We identify two structural breaks that occur in 1990 and 2008 which coincidentally correspond to the Iraqi/Kuwait conflict and the global financial crisis, respectively. We find evidence of persistence and leverage effects in the oil price volatility. While further extensions can be pursued, the consideration of asymmetric effects as well as structural breaks should not be jettisoned when modelling oil price volatility.

Afees A. Salisu; Ismail O. Fasanya

2013-01-01T23:59:59.000Z

175

Gauge - Mediated Supersymmetry Breaking in String Compactifications  

SciTech Connect (OSTI)

We provide string theory examples where a toy model of a SUSY GUT or the MSSM is embedded in a compactification along with a gauge sector which dynamically breaks supersymmetry. We argue that by changing microscopic details of the model (such as precise choices of flux), one can arrange for the dominant mediation mechanism transmitting SUSY breaking to the Standard Model to be either gravity mediation or gauge mediation. Systematic improvement of such examples may lead to top-down models incorporating a solution to the SUSY flavor problem.

Diaconescu, Duiliu-Emanuel; /Rutgers U., Piscataway; Florea, Bogdan; Kachru, Shamit; Svrcek, Peter; /Stanford U., Phys. Dept. /SLAC

2006-01-04T23:59:59.000Z

176

Northwestern University Recombinant DNA  

E-Print Network [OSTI]

natural or synthetic DNA segments to DNA molecules that can replicate in a living cell · molecules that result from the replication of those described above Synthetic DNA segments which are likely to yield) are considered as equivalent to their natural DNA counterpart. If the synthetic DNA segment is not expressed

Shull, Kenneth R.

177

Spontaneous symmetry breaking in gauge theories  

Science Journals Connector (OSTI)

...and beyond the discovery of the Higgs boson. organised and edited by John...and beyond the discovery of the Higgs boson . The aim of this historical article...whose features is the now-famous Higgs boson. symmetry breaking|gauge theory...

2015-01-01T23:59:59.000Z

178

Void fraction measurements in breaking waves  

Science Journals Connector (OSTI)

...height H b and depth d b, energy dissipated per unit crest length in each breaking...vortex area A v. The energy dissipated was obtained from measurements of the incident, transmitted...transmitted and reflected wave energies per unit surface area, respectively...

2007-01-01T23:59:59.000Z

179

REPLACE YOUR MERCURY THERMOMETERS BEFORE THEY BREAK!  

E-Print Network [OSTI]

REPLACE YOUR MERCURY THERMOMETERS BEFORE THEY BREAK! Did you know, mercury from broken thermometers to the local environment, if broken thermometers in sinks eventually end at the sanitary sewer plant. Broken mercury thermometers create hazardous waste that is costly to clean up and costly to dispose of. Other

180

Use of recombinant DNA (rDNA) and Biohazardous Materials  

E-Print Network [OSTI]

constructed outside living cells by joining natural or synthetic DNA segments to DNA molecules that can

Danforth, Bryan Nicholas

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


181

Asiakastyytyväisyystutkimus - DNA Kauppa Lappeenranta.  

E-Print Network [OSTI]

??Opinnäytetyön aiheena oli DNA Kauppa Lappeenrannan asiakastyytyväisyyden tutkiminen. Tutkimuksen ensisijaisena tavoitteena oli selvittää, kuinka tyytyväisiä asiakkaat olivat olleet DNA Kauppa Lappeenrannan ja asiakkaan väliseen kontaktipintaan… (more)

Pitkänen, Jesse

2013-01-01T23:59:59.000Z

182

Sturdier DNA Nanotubes via Ligation Patrick O'Neill, Paul W. K. Rothemund, Ashish Kumar, and D. K. Fygenson*,,  

E-Print Network [OSTI]

Sturdier DNA Nanotubes via Ligation Patrick O'Neill, Paul W. K. Rothemund, Ashish Kumar, and D. K, California 93106 Received February 15, 2006; Revised Manuscript Received May 19, 2006 ABSTRACT DNA nanotubes nanotubes begin to melt at temperatures below 40 °C, break open when deposited on mica or scanned by AFM

Winfree, Erik

183

RAP80 Acts Independently of BRCA1 in Repair of Topoisomerase II Poison-Induced DNA Damage  

Science Journals Connector (OSTI)

...Implications for the repair of topoisomerase I-mediated DNA damage. J Biol Chem 2004;279:37343-8. 15 El-Khamisy SF , Saifi GM, Weinfeld M, et al. Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1...

Junko Iijima; Zhihong Zeng; Shunichi Takeda; Yoshihito Taniguchi

2010-11-01T23:59:59.000Z

184

Housing and Dining Services Spring Break Information March 2011  

E-Print Network [OSTI]

charge to stay over spring break. Kitchenettes will be open in all residence halls over the break period equipment · Refrigerators with food may be left on · Close and lock your windows and doors · Turn off your

185

Winter Break 2011 (January) Knowledge is Power Program  

E-Print Network [OSTI]

(Wellington, Colorado) Winter Break 2009 (January) � La Union del Pueblo Entero (San Juan, TX) (10 participants) � Community Collaborations, Flood Relief (Atlanta, GA) (10 participants) Weekend Breaks Fall 2009

186

Spectral Energy Dissipation due to Surface Wave Breaking  

Science Journals Connector (OSTI)

A semiempirical determination of the spectral dependence of the energy dissipation due to surface wave breaking is presented and then used to propose a model for the spectral dependence of the breaking strength parameter b, defined in the O. M. ...

Leonel Romero; W. Kendall Melville; Jessica M. Kleiss

2012-09-01T23:59:59.000Z

187

Nanometal Surface Energy Transfer in Optical Rulers, Breaking the FRET Barrier  

Science Journals Connector (OSTI)

Nanometal Surface Energy Transfer in Optical Rulers, Breaking the FRET Barrier ... For example, nucleo-protein assemblies with broad biomedical significance often involve a constellation of proteins, which individually and in concert induce both large scale topological changes within the DNA, and regulate the expression of adjacent genes. ... In fact, FRET is commonly written as kFRET = (1/?D)(R0/R).6 The Förster radius (R0) is a function of the oscillator strengths of the donor and acceptor molecules, their mutual energetic resonance, and the vector addition of their dipoles. ...

C. S. Yun; A. Javier; T. Jennings; M. Fisher; S. Hira; S. Peterson; B. Hopkins; N. O. Reich; G. F. Strouse

2005-02-11T23:59:59.000Z

188

Laboratory Studies of Nonlinear and Breaking Surface Waves  

E-Print Network [OSTI]

A. Breaking-wave generation . . . . . . . . . . . . . . . .of the wave tank. . . . . . . . . . . . . . . . . . . .On steep gravity waves meeting a vertical wall: a triple

Drazen, David

2006-01-01T23:59:59.000Z

189

Reactivity studies of antitumor active dirhodium compounds with DNA oligonucleotides  

E-Print Network [OSTI]

48 Circular dichroism (CD) spectropolarimetry spectra of double strands of revAA-revTT 12mer and dirhodium adducts-revTT 12mer..............113 49 An expansion of NOE correlation between aromatic protons of bases and H1? protons of sugar... of correlations between the H5 and H6 protons of cytosine...........117 51 A comparison of DQF-COSY spectra of the revAA 12mer and adduct D (top) or of the revAA 12mer and adduct E (bottom) in the area of correlations between the H5 and H6 protons...

Kang, Mijeong

2007-04-25T23:59:59.000Z

190

Breaking the Fuel Cell Cost Barrier  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Breaking the Fuel Cell Cost Barrier Breaking the Fuel Cell Cost Barrier AMFC Workshop May 8 th , 2011, Arlington, VA Shimshon Gottesfeld, CTO The Fuel Cell Cost Challenge 2 CellEra's goal - achieve price parity with incumbents earlier on in market entry process ! Mainstream Polymer Electrolyte Fuel Cell ( PEM) Cost Barriers 3 Graphite / stainless steel hardware Acidic membrane Platinum based electrodes Cost barriers deeply embedded in core tech materials BOM-based cost barriers - 90% of stack cost Cost volatility - Platinum $500/Oz - $2,500/Oz The possibility of an OH - ion conducting membrane 4 Non-acidic membrane CellEra Took Advantage of this Opportunity A new type of membrane component with potential for strong fuel cell cost cuts was revealed in 2006, but was accompanied by general industry skepticism

191

Breaking the Code of Cell Communication  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Breaking the Code of Cell Communication Breaking the Code of Cell Communication A method that cells use to communicate and coordinate activities has been confirmed by researchers from Cornell University, Monsanto Co., and Argonne. This work could lead to new drugs for the fight against such diseases as cystic fibrosis and the bubonic plague, or to new technologies that perform useful environmental tasks such as filtering water. The structure of the key protein that enables quorum-sensing bacteria to communicate and spread infection. Above: The structure of the key protein that enables quorum-sensing bacteria to communicate and spread infection. Biologists have theorized that bacteria communicate by releasing and sensing chemical pheromones to detect their population densities, an activity called "quorum sensing." This theory was confirmed by

192

Broadband acoustic imaging of breaking waves  

Science Journals Connector (OSTI)

An acoustic array was deployed in the near?surface layer in Saanich Inlet BC to image breaking waves using only the naturally occurring acoustical radiation in the band (160 and 2000 Hz) from the breaking region. The 15?element array was configured as a horizontal cross with an 8?m aperture bottom?moored and positioned nominally 3 m beneath the surface. A novel broadband scheme combined information at six independent frequencies above about 400 Hz to yield unambiguous resolved images. A parametric image analysis shows that the images align closely with the wind and can be observed moving downwind with a speed roughly equal to the dominant phase speed of the wind waves. Absolute power levels are found to be consistent with previously published results. The data also provide inferences regarding the sound generation mechanism at ‘‘collective oscillation’’ frequencies below about 400 Hz. [Work supported by ONR.

Rex K. Andrew; David M. Farmer; R. Lynn Kirlin

1997-01-01T23:59:59.000Z

193

External breaking of ground-state symmetry  

Science Journals Connector (OSTI)

Ground-state symmetry can be broken by an external field. The threshold value of the symmetry-breaking field may be roughly estimated by comparing experimentally the behavior of two identical physical quantities, as functions of the field, for the set of field directions equivalent, with respect to the action, to a group generator. The kinetic coefficients as the functions of magnetic induction B are used as an illustration.

S. Malinowski

1994-01-01T23:59:59.000Z

194

Dec. 13-Jan. 3 Winter Break  

E-Print Network [OSTI]

Dec. 13-Jan. 3 Winter Break Students must be out of residence halls by 10 a.m. on Dec. 13. Students may return to residence halls after 1 p.m. on Jan. 3. Jan. 8 Last day to drop a course without a fee Dance Company Grupo de Rua 8 p.m., Campbell Hall Arts & Lectures tickets may be purchased by calling

California at Santa Barbara, University of

195

Charge breaking bounds in the Zee model  

E-Print Network [OSTI]

We study the possibility that charge breaking minima occur in the Zee model. We reach very different conclusions from those attained in simpler, two Higgs doublet models, and the reason for this is traced back to the existence of cubic terms in the potential. A scan of the Zee model's parameter space shows that CB is restricted to a narrow region of values of the parameters.

A. Barroso; P. M. Ferreira

2005-10-11T23:59:59.000Z

196

Precisely Controlled Smart Polymer Scaffold for Nanoscale Manipulation of Biomolecules  

E-Print Network [OSTI]

for the next generation of nanomachines and biosensors. Synthetic molecular motors, and especially DNA motors for synthetic nanopores.8 Other platforms utilize orientation changes of surface immobilized DNA, termed "DNA double stranded DNA (dsDNA) and the conforma- tion of a polymer scaffold through variation in buffer p

197

DNA Nanotechnology- Architechtures Designed with DNA.  

E-Print Network [OSTI]

??As the genetic information storage vehicle, deoxyribonucleic acid (DNA) molecules are essential to all known living organisms and many viruses. It is amazing that such… (more)

Han, Dongran

2012-01-01T23:59:59.000Z

198

Spontaneous Supersymmetry Breaking Induced by Vacuum Condensates  

E-Print Network [OSTI]

We propose a novel mechanism of spontaneous supersymmetry breaking which relies upon an ubiquitous feature of Quantum Field Theory, vacuum condensates. Such condensates play a crucial r\\^{o}le in many phenomena. Examples include Unruh effect, superconductors, particle mixing, and quantum dissipative systems. We argue that in all these phenomena supersymmetry, when present, is spontaneously broken. Evidence for our conjecture is given for the Wess--Zumino model, that can be considered an approximation to the supersymmetric extensions of the above mentioned systems. The magnitude of the effect is estimated for a recently proposed experimental setup based on an optical lattice.

Antonio Capolupo; Marco Di Mauro

2012-08-29T23:59:59.000Z

199

Radiation physics, biophysics, and radiation biology. Progress report, December 1, 1992--November 30, 1993  

SciTech Connect (OSTI)

Research at the Center for Radiological Research is a multidisciplenary blend of physics, chemistry and biology aimed at understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. The focus is increased on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights of the program from the past year are described. A mathematical model describing the production of single-strand and double-strand breaks in DNA as a function radiation quality has been completed. For the first time Monte Carlo techniques have been used to obtain directly the spatial distribution of DNA moieties altered by radiation. This information was obtained by including the transport codes a realistic description of the electronic structure of DNA. We have investigated structure activity relationships for the potential oncogenicity of a new generation of bioreductive drugs that function as hypoxic cytotoxins. Experimental and theoretical investigation of the inverse dose rate effect, whereby medium LET radiations actually produce an c effect when the dose is protracted, is now at a point where the basic mechanisms are reasonably understood and the complex interplay between dose, dose rate and radiation quality which is necessary for the effect to be present can now be predicted at least in vitro. In terms of early radiobiological damage, a quantitative link has been established between basic energy deposition and locally multiply damaged sites, the radiochemical precursor of DNA double strand breaks; specifically, the spatial and energy deposition requirements necessary to form LMDs have been evaluated. For the first time, a mechanically understood ``biological fingerprint`` of high-LET radiation has been established. Specifically measurement of the ratio of inter-to intra-chromosomal aberrations produces a unique signature from alpha-particles or neutrons.

Hall, E.J.; Zaider, M.

1993-05-01T23:59:59.000Z

200

Radiation physics, biophysics, and radiation biology  

SciTech Connect (OSTI)

Research at the Center for Radiological Research is a multidisciplenary blend of physics, chemistry and biology aimed at understanding the mechanisms involved in the health problems resulting from human exposure to ionizing radiations. The focus is increased on biochemistry and the application of the techniques of molecular biology to the problems of radiation biology. Research highlights of the program from the past year are described. A mathematical model describing the production of single-strand and double-strand breaks in DNA as a function radiation quality has been completed. For the first time Monte Carlo techniques have been used to obtain directly the spatial distribution of DNA moieties altered by radiation. This information was obtained by including the transport codes a realistic description of the electronic structure of DNA. We have investigated structure activity relationships for the potential oncogenicity of a new generation of bioreductive drugs that function as hypoxic cytotoxins. Experimental and theoretical investigation of the inverse dose rate effect, whereby medium LET radiations actually produce an c effect when the dose is protracted, is now at a point where the basic mechanisms are reasonably understood and the complex interplay between dose, dose rate and radiation quality which is necessary for the effect to be present can now be predicted at least in vitro. In terms of early radiobiological damage, a quantitative link has been established between basic energy deposition and locally multiply damaged sites, the radiochemical precursor of DNA double strand breaks; specifically, the spatial and energy deposition requirements necessary to form LMDs have been evaluated. For the first time, a mechanically understood biological fingerprint'' of high-LET radiation has been established. Specifically measurement of the ratio of inter-to intra-chromosomal aberrations produces a unique signature from alpha-particles or neutrons.

Hall, E.J.; Zaider, M.

1993-05-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


201

Chip breaking system for automated machine tool  

DOE Patents [OSTI]

The invention is a rotary selectively directional valve assembly for use in an automated turret lathe for directing a stream of high pressure liquid machining coolant to the interface of a machine tool and workpiece for breaking up ribbon-shaped chips during the formation thereof so as to inhibit scratching or other marring of the machined surfaces by these ribbon-shaped chips. The valve assembly is provided by a manifold arrangement having a plurality of circumferentially spaced apart ports each coupled to a machine tool. The manifold is rotatable with the turret when the turret is positioned for alignment of a machine tool in a machining relationship with the workpiece. The manifold is connected to a non-rotational header having a single passageway therethrough which conveys the high pressure coolant to only the port in the manifold which is in registry with the tool disposed in a working relationship with the workpiece. To position the machine tools the turret is rotated and one of the tools is placed in a material-removing relationship of the workpiece. The passageway in the header and one of the ports in the manifold arrangement are then automatically aligned to supply the machining coolant to the machine tool workpiece interface for breaking up of the chips as well as cooling the tool and workpiece during the machining operation.

Arehart, Theodore A. (Clinton, TN); Carey, Donald O. (Oak Ridge, TN)

1987-01-01T23:59:59.000Z

202

Acoustic radiation due to surface wave breaking.  

Science Journals Connector (OSTI)

While wave breaking is continually occurring at the sea surface its transient and sporadic nature makes it difficult to measure. Experimental results are presented that show how acoustic methods can be used as a remote sensor of this fundamental process. Sea surface?generated acoustic radiation (40 to 4000 Hz) is directly related to a quantitative measure of the boundary dynamics; i.e. the Toba variable. The frequency spectrum of the radiation remains remarkably unchanged over a wide range of environmental conditions but the correlation between the sound pressure level and the Toba variable undergoes an abrupt change when spilling breakers start to occur. Results support the use of acoustics to remotely measure the rate of energy being dissipated by wave breaking and the wavelength of the dominant gravity wave component. Theoretical studies have related the field measurements to analytical and laboratory results cited in the literature indicating that remote monitoring of the rate of occurrence and size distribution of ‘‘infant’’ (freshly entrained) bubbles may be possible if splashes on the surface do not radiate significant sound. Signal processing algorithms for the remote measurements discussed above are enhanced by eigenstructure analysis of the measured cross?spectral density matrix. [Work sponsored by ONR and NUSC.

Robert M. Kennedy; Stewart A. L. Glegg

1992-01-01T23:59:59.000Z

203

Exploring Cartan gravity with dynamical symmetry breaking  

E-Print Network [OSTI]

It has been known for some time that General Relativity can be regarded as a Yang-Mills-type gauge theory in a symmetry broken phase. In this picture the gravity sector is described by an $SO(1,4)$ or $SO(2,3)$ gauge field $A^{a}_{\\phantom{a}b\\mu}$ and Higgs field $V^{a}$ which acts to break the symmetry down to that of the Lorentz group $SO(1,3)$. This symmetry breaking mirrors that of electroweak theory. However, a notable difference is that while the Higgs field $\\Phi$ of electroweak theory is taken as a genuine dynamical field satisfying a Klein-Gordon equation, the gauge independent norm $V^2\\equiv \\eta_{ab}V^{a}V^{b}$ of the Higgs-type field $V^a$ is typically regarded as non-dynamical. Instead, in many treatments $V^a$ does not appear explicitly in the formalism or is required to satisfy $V^2 = \\mathrm{const.} \

H. F. Westman; T. G. Zlosnik

2014-03-24T23:59:59.000Z

204

Automating DNA processing  

E-Print Network [OSTI]

Center are exploring the potential of sequencing by hybridization (3). They are developing electronically addressable fixtures to contain immobilized synthetic DNA probes that can bind to target DNA samples. They call these microfabricated devices... Center are exploring the potential of sequencing by hybridization (3). They are developing electronically addressable fixtures to contain immobilized synthetic DNA probes that can bind to target DNA samples. They call these microfabricated devices...

Wienen, Michael Jan

2012-06-07T23:59:59.000Z

205

Covalently Linked DNA Nanotubes  

Science Journals Connector (OSTI)

SEM analyses of the nanotubes generated according to Scheme 2 further support the suggested folding of the 2D cross-linked DNA array into the nanotube structure. ... Here, we report a modular approach to DNA nanotube synthesis that provides access to geometrically well-defined triangular and square-shaped DNA nanotubes. ... and assembly of carbon nanotubes, and in nanotube-based DNA sensing and sepns. ...

Ofer I. Wilner; Anja Henning; Bella Shlyahovsky; Itamar Willner

2010-03-17T23:59:59.000Z

206

DNA nanotechnology: a future perspective  

Science Journals Connector (OSTI)

The rise of DNA-based nanobiotechnology has led to an increase in demand for synthetic DNA. DNA can be synthesized from nucleotides into ... technology has been the significant error rate of synthetic DNA sequenc...

Muniza Zahid; Byeonghoon Kim; Rafaqat Hussain; Rashid Amin…

2013-03-01T23:59:59.000Z

207

Natural DNA sequencing by synthesis  

E-Print Network [OSTI]

labeling of a synthetic DNA template. By combining the bestpolyadenylation of a 100-base synthetic DNA template (nSBST)

Roller, Eric E.

2011-01-01T23:59:59.000Z

208

Española entrepreneur breaks ground; expansion will create 50...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Espaola entrepreneur breaks ground; expansion will create 50 new jobs Community Connections: Your link to news and opportunities from Los Alamos National Laboratory Latest Issue:...

209

Symmetry Breaking in Graphene Gregory S. Boebinger, National...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Symmetry Breaking in Graphene Gregory S. Boebinger, National High Magnetic Field Laboratory DMR-Award 0654118 DC Field Facility While the laws of physics are often symmetric,...

210

Dynamical electroweak symmetry breaking and the top quark  

SciTech Connect (OSTI)

In this talk, I discuss theories of dynamical electroweak symmetry breaking, with emphasis on the implications of a heavy top quark on the weak interaction {rho} parameter.

Chivukula, R.S. [Boston Univ., MA (United States)

1997-01-01T23:59:59.000Z

211

LANL breaks ground on key sediment control project  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Sediment control project LANL breaks ground on key sediment control project Called "grade-control" structures, the approximately 2 million features are up to eight feet high and...

212

Breaking Through the Glass Ceiling: Recent Experimental Approaches...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Through the Glass Ceiling: Recent Experimental Approaches to Probe the Properties of Supercooled Liquids near the Glass Breaking Through the Glass Ceiling: Recent Experimental...

213

Breaking through the Glass Ceiling: The Correlation Between the...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

through the Glass Ceiling: The Correlation Between the Self-Diffusivity in and Krypton Permeation through Deeply Breaking through the Glass Ceiling: The Correlation Between the...

214

Tips for Running an Air Conditioner Without Breaking the Bank  

Broader source: Energy.gov [DOE]

With summer temperatures rising, air conditioners are working overtime, but it is possible to enjoy to cool comfort without breaking the bank.

215

DNA Sequencing apparatus  

DOE Patents [OSTI]

An automated DNA sequencing apparatus having a reactor for providing at least two series of DNA products formed from a single primer and a DNA strand, each DNA product of a series differing in molecular weight and having a chain terminating agent at one end; separating means for separating the DNA products to form a series bands, the intensity of substantially all nearby bands in a different series being different, band reading means for determining the position an This invention was made with government support including a grant from the U.S. Public Health Service, contract number AI-06045. The U.S. government has certain rights in the invention.

Tabor, Stanley (Cambridge, MA); Richardson, Charles C. (Chestnut Hill, MA)

1992-01-01T23:59:59.000Z

216

Resonant Instability in Mountain Waves: Breaking at Subcritical Mountain Heights  

E-Print Network [OSTI]

Resonant Instability in Mountain Waves: Breaking at Subcritical Mountain Heights Kevin Viner1 and breaks subcritical critical Nh/U = 0.5 Nh/U = 0.8 #12;Subcritical Instability: An Example three peaks · Nh/U = 0.6 · U/NL = 0.1 · nonrotating · Time-dependent model initialized with subcritical steady wave

217

Defective DNA single-strand break repair in spinocerebellar ataxia with axonal neuropathy-1  

Science Journals Connector (OSTI)

... in spinocerebellar ataxia with axonal neuropathy-1 Sherif F. El-Khamisy SF Gulam M.Saifi GM Michael Weinfeld M Fredrik Johansson F Thomas Helleday T James R. Lupski JR ...

Sherif F. El-Khamisy; Gulam M. Saifi; Michael Weinfeld; Fredrik Johansson; Thomas Helleday; James R. Lupski; Keith W. Caldecott

2005-03-03T23:59:59.000Z

218

Low Dose Radiation Research Program: Robert L. Ullrich  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Robert L. Ullrich Robert L. Ullrich Colorado State University Currently Funded Projects Radiation Leukemogenesis at Low Dose Rates (NSCOR) Genetic Mechanisms of Induced Chromosomal Instability and their Relationships with Radiation Tumorigenesis Technical Abstracts 2006 Workshop: The Role of Telomere Dysfunction in Driving Genomic Instability Bailey, S.M., Williams, E.S., and Ullrich, R.L. 2005 Workshop: Dsyfunctional Mammalian Telomeres in DNA-PKcs Deficient Backgrounds Bailey, S.M., Williams, E., Hagelstrom, T., and Ullrich, R.L. 2003 Workshop: Dysfunctional Mammalian Telomeres Join to Double-Strand Breaks Bailey, S.M., Goodwin, E.H., Williams, E., and Ullrich, R.L. 2002 Workshop: Dysfunctional Telomeres, Radiation-Induced Instability and Tumorigenesis Bailey, S.M., Goodwin, E.H., Cornforth, M.N., and Ullrich, R.L.

219

Radiation Induced Chromatid-type Aberrations after Irradiation of Late-S/G2  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Induced Chromatid-type Aberrations after Irradiation of Late-S/G2 Induced Chromatid-type Aberrations after Irradiation of Late-S/G2 Cells: Roles of Homologous Recombination and Non-Homologous End Joining Joel Bedford Colorado State University Abstract There has been considerable discussion, with some data reported, addressing the question of the relative contributions of non-homologous end joining (NHEJ) and homologous recombinational repair (HRR) on the repair or rejoining of radiation-induced DNA double strand breaks, especially in relation to their operation during the cell cycle. Reports have included studies on chromosomal aberration induction in G1/G0 cells defective in NHEJ or A-T cells, for example, but relatively little on S/G2 cells and especially on mutants defective in HRR. The broad biological importance of

220

Cells Forming Blood Vessels Send Their Copper to the Edge | Advanced Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

A Molecular Cause for One Form of Deafness A Molecular Cause for One Form of Deafness Water Theory is Watertight Nanowire Micronetworks from Carbon-Black Nanoparticles A Key Step in Repairing DNA Double-Strand Breaks An X-ray Rainbow Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed Cells Forming Blood Vessels Send Their Copper to the Edge FEBRUARY 20, 2007 Bookmark and Share Areas at the tips of HMVEC filopodia extensions were scanned by XFM at high resolution. The optical image is shown to the right and metal maps are shown to the left. False color images of P, Cu, and Zn are shown in the red, green and blue images respectively, and their overlay is shown to the lower right, demonstrating a transfer of cellular copper across the cell

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


221

A Molecular Cause for One Form of Deafness | Advanced Photon Source  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Water Theory is Watertight Water Theory is Watertight Nanowire Micronetworks from Carbon-Black Nanoparticles A Key Step in Repairing DNA Double-Strand Breaks An X-ray Rainbow An Insulating Breakthrough Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed A Molecular Cause for One Form of Deafness FEBRUARY 12, 2007 Bookmark and Share Gerard Wong, a professor of materials science and engineering, of physics, and of bioengineering at Illinois, and colleagues have found an underlying molecular cause for one form of deafness, while exploring the physics of hearing. (Photo by L. Brian Stauffer) Scientists exploring the physics of hearing have found an underlying molecular cause for one form of deafness, and a conceptual connection

222

Meta-DNA: synthetic biology via DNA nanostructures and  

E-Print Network [OSTI]

Meta-DNA: synthetic biology via DNA nanostructures and hybridization reactions Harish Chandran1 strands and may be modified to allow for mutations. Keywords: DNA self-assembly; synthetic biology; DNA nanostructures 1. INTRODUCTION 1.1. Synthetic biology using DNA nanosystems A major goal of synthetic biology

Reif, John H.

223

Flavopiridol Potentiates the Cytotoxic Effects of Radiation in Radioresistant Tumor Cells in Which p53 is Mutated or Bcl-2 is Overexpressed  

SciTech Connect (OSTI)

Purpose: Loss of the cell-cycle regulatory protein p53 or overexpression of the antiapoptotic protein Bcl-2 is associated with resistance to radiation in several types of cancer cells. Flavopiridol, a synthetic flavone, inhibits the growth of malignant tumors cells in vitro and in vivo through multiple mechanisms. The purpose of the present study is to clarify whether flavopiridol enhances the cytotoxic effects of radiation in tumor cells that contain dysfunction p53 or that overexpress Bcl-2. Methods and Materials: A human glioma cell line (A172/mp53) stably transfected with a plasmid containing mutated p53 and a human cervical cancer cell line (HeLa/bcl-2) transfected with a bcl-2 expression plasmid were used. Cells were incubated with flavopiridol for 24 h after radiation, and then cell viability was determined by a colony formation assay. Foci of phosphorylated histone H2AX were also evaluated as a sensitive indicator of DNA double-strand breaks. Results: Compared with the parental wild-type cells, both transfected cell lines were more resistant to radiation. Post-treatment with flavopiridol increased the cytotoxic effects of radiation in both transfected cell lines, but not in their parental wild-type cell lines. Post-treatment with flavopiridol inhibited sublethal damage repair as well as the repair of DNA double-strand breaks in response to radiation. Conclusions: Flavopiridol enhanced the cytotoxic effect of radiation in radioresistant tumor cells that harbor p53 dysfunction or Bcl-2 overexpression. A combination treatment of flavopiridol with radiation has the potential to conquer the radioresistance of malignant tumors induced by the genetic alteration of p53 or bcl-2.

Hara, Takamitsu [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama (Japan); Omura-Minamisawa, Motoko [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama (Japan)], E-mail: momuram@med.yokohama-cu.ac.jp; Kang, Yun; Cheng, Chao; Inoue, Tomio [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama (Japan)

2008-08-01T23:59:59.000Z

224

Controlling DNA Methylation  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Controlling DNA Methylation Though life on earth is composed of a diverse range of organisms, some with many different types of tissues and cells, all these are encoded by a molecule we call DNA. The information required to build a protein is stored in DNA within the cells. Not all the message in the DNA is used in each cell and not all the message is used all the time. During cell differentiation, the cells become dedicated for their specific function which involves selectively activating some genes and repressing others. Gene regulation is an important event in the developmental biology and the biology of various diseases, but a more complex process. Controlling DNA Methylation Though life on earth is composed of a diverse range of organisms, some with many different types of tissues and cells, all these are encoded by a molecule we call DNA. The information required to build a protein is stored in DNA within the cells. Not all the message in the DNA is used in each cell and not all the message is used all the time. During cell differentiation, the cells become dedicated for their specific function which involves selectively activating some genes and repressing others. Gene regulation is an important event in the developmental biology and the biology of various diseases, but a more complex process. In the bacteria there are distinct enzymes while one is capable of cleaving DNA, the other protects DNA by modification. The complementary function provided by the set of enzymes offers a defense mechanism against the phage infection and DNA invasion. The incoming DNA is cleaved sequence specifically by the class of enzymes called restriction endonuclease (REase). The host DNA is protected by the sequence specific action of matching set of enzymes called the DNA methyltransferase (MTase). The control of the relative activities of the REase and MTase is critical because a reduced ratio of MTase/REase activity would lead to cell death via autorestriction. However too high a ratio would fail to provide protection against invading viral DNA. In addition a separate group of proteins capable of controlling R-M proteins have been identified in various restriction-modification (R-M) systems which are called C proteins (Roberts et al., 2003).

225

DNA's Role with Proteins  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA's Role with Proteins DNA's Role with Proteins Name: Hans Location: N/A Country: N/A Date: N/A Question: Is it sure that the most important information of living cells is stored in the DNA? DNA seems to be nothing more than an inventory of useful proteins and a tool to create those proteins. Could it be that more important operational know how of how these proteins interact to build a living organism is actually located in the rest of the cell? So that the rest of the cell is the most important inheritance, whereas DNA merely takes care of the genetic variation? Replies: DNA is the entire library of protein information for an organism. All seven types of protein. It is true that in developmental stages of an organism that the presence and absences of certain proteins and other chemicals generated by proteins will influence what the DNA in a "particular" cell will express. Hence, you can start out with one cell and end up with a complex organism. You may have heard some of this information with the cloning activities that have been going on lately. All the inheritance comes from the DNA, but what parts of the DNA expression may be dictated by the cells special characteristics developed upon specializing. In that way the liver cells will only do "liver" things and the kidney cells will only do "kidney" things, BUT they use the same DNA information to operate, just a different portion of the same DNA that pertains to their particular "job". If you can convince a cell that it does not have a special job anymore, then you can develop the entire organism from this cell with the right signals; this is what cloning techniques have done!

226

Breaking wind waves as a source of ambient noise  

Science Journals Connector (OSTI)

A theoretical model for the prediction of ambient noise level due to collective oscillations of air bubbles under breaking wind waves is presented. The model uses a budget of the energy flux from the breaking waves to quantify acoustic power radiation by a bubble cloud. A shift of the noise spectra to lower frequency due to collective bubble oscillation is assumed. The model derives good estimates of the magnitude slope and frequency range of the noise spectra using the wind speed or height of breaking waves.

Pavlo Tkalich; Eng Soon Chan

2002-01-01T23:59:59.000Z

227

RG analysis of magnetic catalysis in dynamical symmetry breaking  

SciTech Connect (OSTI)

We perform the renormalization group analysis on the dynamical symmetry breaking under strong external magnetic field, studied recently by Gusynin, Miransky and Shovkovy. We find that any attractive four-Fermi interaction becomes strong in the low energy, thus leading to dynamical symmetry breaking. When the four-Fermi interaction is absent, the {beta}-function for the electromagnetic coupling vanishes in the leading order in 1/N. By solving the Schwinger-Dyson equation for the fermion propagator, we show that in 1/N expansion, for any electromagnetic coupling, dynamical symmetry breaking occurs due to the presence of Landau energy gap by the external magnetic field. 5 refs.

Hong, Deog Ki [Pusan National Univ., (Korea). Dept. of Physics]|[Florida Univ., Gainesville, FL (United States); Kim, Youngman [Hanyang Univ., Seoul (Korea). Dept. of Physics

1996-05-01T23:59:59.000Z

228

Received 12 Apr 2013 | Accepted 30 May 2013 | Published 2 Jul 2013 CRISPR-Cas and restrictionmodification systems  

E-Print Network [OSTI]

-Cas and restriction­modification systems are compatible and increase phage resistance Marie-E`ve Dupuis1,2, Manuela systems exist and at least two of them directly target the incoming DNA: restriction­modification (R plasticity. The most studied phages have double-stranded DNA (dsDNA) genome encapsidated in a protein capsid

Cai, Long

229

Role of Lon, an ATP-Dependent Protease Homolog, in Resistance of Pseudomonas aeruginosa to Ciprofloxacin  

Science Journals Connector (OSTI)

...in the pharmaceutical pipeline, resistance to the current...of SOS-mediated DNA repair mechanisms and cell filamentation...PA4763 recN RecN DNA repair protein H1121 6_G1...faithful recombinational repair of DNA double-strand...in the pharmaceutical pipeline, resistance to the current...

Michelle D. Brazas; Elena B. M. Breidenstein; Joerg Overhage; Robert E. W. Hancock

2007-09-24T23:59:59.000Z

230

Predicting cisplatin and trabectedin drug sensitivity in ovarian and colon cancers  

Science Journals Connector (OSTI)

...www.gene.com/gene/pipeline/status/oncology/apo2l...to broken chromosomes.DNA Repair (Amst) 2006;5:534-43...19. Lukas J Bartek J.DNA repair: New tales of an old tail...depends on nucleotide excision repair and not DNA double-strand...

Ellen V. Stevens; Satoshi Nishizuka; Smitha Antony; Mark Reimers; Sudhir Varma; Lynn Young; Peter J. Munson; John N. Weinstein; Elise C. Kohn; and Yves Pommier

2008-01-01T23:59:59.000Z

231

DNA | Open Energy Information  

Open Energy Info (EERE)

DNA DNA Jump to: navigation, search GEOTHERMAL ENERGYGeothermal Home NEPA Casual Use Determination of NEPA Adequacy Categorical Exclusion Environmental Assessment Environmental Impact Statements Print PDF NEPA-Related Analysis: Determination of NEPA Adequacy (DNA) General Document Collections (28) Documents Regulatory Roadmap NEPA-Related Analysis: Determination of NEPA Adequacy and Land Use Plan Conformance (DNA) placeholder. This query has been included to allow you to use the black arrows in the table header cells to sort the table data. Document # Serial Number Applicant Lead Agency District Office Field Office Development Phase(s) Techniques DOI-BLM-NM-L000-2012-0020-DNA Lightning Dock Geothermal Inc BLM BLM Las Cruces District Office BLM Geothermal/Exploration

232

Symmetry Breaking of H2 Dissociation by a Single Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Symmetry Breaking of H2 Symmetry Breaking of H2 Dissociation by a Single Photon Symmetry Breaking of H2 Dissociation by a Single Photon Print Wednesday, 25 July 2007 00:00 A single hydrogen (or deuterium) molecule consists of only two protons (deuterons) and two electrons and is perfectly symmetric. Linearly polarized photons are similarly symmetric. So one might think that the angular distribution of photoelectrons resulting from photoionization of the molecule by the photon accompanied by dissociation into a hydrogen atom and a hydrogen ion would itself be symmetric. However, an international team of researchers from Germany, Spain, and the U.S. has now shown that this need not be the case. When there are multiple quantum paths for the process, interference between waves in the coherent superposition of electron states (which exists when the molecular fragments are still close together) skews the distribution by breaking the molecular symmetry.

233

Pantex breaks ground on renewable energy project | National Nuclear  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

breaks ground on renewable energy project | National Nuclear breaks ground on renewable energy project | National Nuclear Security Administration Our Mission Managing the Stockpile Preventing Proliferation Powering the Nuclear Navy Emergency Response Recapitalizing Our Infrastructure Continuing Management Reform Countering Nuclear Terrorism About Us Our Programs Our History Who We Are Our Leadership Our Locations Budget Our Operations Media Room Congressional Testimony Fact Sheets Newsletters Press Releases Speeches Events Social Media Video Gallery Photo Gallery NNSA Archive Federal Employment Apply for Our Jobs Our Jobs Working at NNSA Blog Home > NNSA Blog > Pantex breaks ground on renewable energy project Pantex breaks ground on renewable energy project Posted By Office of Public Affairs Today was a rare windless day on the plains of the Texas Panhandle, but

234

Breaking Ground in Miami-Dade | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking Ground in Miami-Dade Breaking Ground in Miami-Dade Breaking Ground in Miami-Dade October 15, 2010 - 4:28pm Addthis Existing Miami-Dade county water treatment facility. Existing Miami-Dade county water treatment facility. Andy Oare Andy Oare Former New Media Strategist, Office of Public Affairs Officials from Miami-Dade County and the U.S. Department of Energy were on hand Wednesday, October 13th to formally break ground on an innovative project that will help improve the energy efficiency of one of the county's major water treatment facilities. The project will upgrade and expand the existing power generation system at the water plant which generates electricity from digester gas produced at the plant. Landfill gas, which is produced from the Solid Waste Department's South Dade Landfill, will be collected and piped across a

235

Pantex breaks ground on renewable energy project | National Nuclear  

National Nuclear Security Administration (NNSA)

breaks ground on renewable energy project | National Nuclear breaks ground on renewable energy project | National Nuclear Security Administration Our Mission Managing the Stockpile Preventing Proliferation Powering the Nuclear Navy Emergency Response Recapitalizing Our Infrastructure Continuing Management Reform Countering Nuclear Terrorism About Us Our Programs Our History Who We Are Our Leadership Our Locations Budget Our Operations Media Room Congressional Testimony Fact Sheets Newsletters Press Releases Speeches Events Social Media Video Gallery Photo Gallery NNSA Archive Federal Employment Apply for Our Jobs Our Jobs Working at NNSA Blog Home > NNSA Blog > Pantex breaks ground on renewable energy project Pantex breaks ground on renewable energy project Posted By Office of Public Affairs Today was a rare windless day on the plains of the Texas Panhandle, but

236

Vermont Yankee simulator qualification: large-break LOCA  

SciTech Connect (OSTI)

Yankee Atomic Electric Company (YAEC) has developed simulator benchmark capabilities for the Seabrook, Maine Yankee, and Vermont Yankee Nuclear Power Station (VYNPS) simulators. The goal is to establish that each simulator has a satisfactory real-time response for different scenarios that will enhance operator training. Vermont Yankee purchased a full-scope plane simulator for the VYNPS, a four-unit boiling water reactor with a Mark-I containment. The following seven benchmark cases were selected by YAEC and VYNPC to supplement the Simulator Acceptance Test Program: (1) control rod swap; (2) partial reactor scram; (3) recirculation pump trip; (4) main steam isolation valve (MSIV) closure without scram, (5) main steamline break, (6) small-break loss-of-coolant accident (LOCA), and (7) large-break LOCA. Five simulator benchmark sessions have been completed. Each session identified simulator capabilities and limitations that needed correction. This paper discusses results from the latest large-break LOCA case.

Loomis, J.N.; Fernandez, R.T.

1987-01-01T23:59:59.000Z

237

Purchasing Power Parity: Error Correction Models and Structural Breaks  

Science Journals Connector (OSTI)

This paper examines purchasing power parity (PPP) behavior using error correction models (ECM) and allowing for structural breaks. We distinguish four different objectives: first, this paper examines which var...

Amalia Morales Zumaquero; Rodrigo Peruga Urrea

2002-01-01T23:59:59.000Z

238

Calculation of the Limiting CESSAR Steam Line Break Transients  

Science Journals Connector (OSTI)

Argonne National Laboratory (ANL), under contract to the Nuclear Regulatory Commission, performed audit calculations of the limiting and Steam Line Break (SLB) [1] transient presented in the CESSAR FSAR. The r...

G. B. Peeler; D. L. Caraher; J. Guttmann

1984-01-01T23:59:59.000Z

239

New Mechanisms of Gauge-Mediated Supersymmetry Breaking  

E-Print Network [OSTI]

We introduce new mechanisms for the communication of supersymmetry breaking via gauge interactions. These models do not require complicated dynamics to induce a nonvanishing F term for a singlet. The first class of models communicates supersymmetry breaking to the visible sector through a ``mediator" field that transforms under both a messenger gauge group of the dynamical supersymmetry breaking sector and the standard model gauge group. This model has distinctive phenomenology; in particular, the scalar superpartners should be heavier by at least an order of magnitude than the gaugino superpartners. The second class of models has phenomenology more similar to the ``standard" messenger sectors. A singlet is incorporated, but the model does not require complicated mechanisms to generate a singlet F term. The role of the singlet is to couple fields from the dynamical symmetry breaking sector to fields transforming under the standard model gauge group. We also mention a potential solution to the $\\mu$ problem.

Lisa Randall

1996-12-19T23:59:59.000Z

240

Some Evidence of Colinear Wind Stress and Wave Breaking  

Science Journals Connector (OSTI)

Data collected during the Surface Waves and Processes Program are employed to investigate a possible interrelation between wind stress and surface wave breaking. From comparison of data from 15 half-hour long time segments, the directions of the ...

Karl F. Rieder; Jerome A. Smith; Robert A. Weller

1996-11-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


241

Symmetry Breaking of H2 Dissociation by a Single Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Symmetry Breaking of H2 Dissociation by a Single Photon Print A single hydrogen (or deuterium) molecule consists of only two protons (deuterons) and two electrons and is perfectly...

242

Statistical estimation of water distribution system pipe break risk  

E-Print Network [OSTI]

The deterioration of pipes in urban water distribution systems is of concern to water utilities throughout the world. This deterioration generally leads to pipe breaks and leaks, which may result in reduction in the water-carrying capacity...

Yamijala, Shridhar

2009-05-15T23:59:59.000Z

243

Sets of Symmetry Breaking Constraints Barbara M. Smith  

E-Print Network [OSTI]

Sets of Symmetry Breaking Constraints Barbara M. Smith Cork Constraint Computation Centre, University College Cork, Ireland b.m.smith@4c.ucc.ie Abstract [Puget, 2004] has shown that if the symmetry

Smith, Barbara M.

244

Energy Dissipation of Unsteady Wave Breaking on Currents  

Science Journals Connector (OSTI)

Energy dissipation for unsteady deep-water breaking in wave groups on following and opposing currents, including partial wave-blocking conditions, was investigated by detailed laboratory measurements. A range of focusing wave conditions, ...

Aifeng Yao; Chin H. Wu

2004-10-01T23:59:59.000Z

245

A Comparison of Measured and Predicted Wave-Impact Pressures from Breaking and Non-breaking Waves  

E-Print Network [OSTI]

Impact loads from waves on vessels and coastal structures are complex and may involve wave breaking, which has made these loads difficult to estimate numerically or empirically. Results from previous experiments have shown a wide range of forces and pressures measured from breaking and nonbreaking waves, with no clear trend between wave characteristics and the localized forces and pressures that they generate. In 2008, a canonical breaking wave impact data set was obtained at the Naval Surface Warfare Center, Carderock Division, by measuring the distribution of impact pressures of incident nonbreaking and breaking waves on one face of a cube. This experimental effort was sponsored by the Office of Naval Research (ONR), under the Dynamics of Interacting Platforms Program, Program Manager Dr. Ron Joslin. The effects of wave height, wavelength, face orientation, face angle, and submergence depth were investigated. Additionally, a limited number of runs were made at low forward speeds, ranging from about 0.5 to 2...

Fullerton, Anne M; Brewton, Susan; Brucker, Kyle A; O'Shea, Thomas T; Dommermuth, Douglas G

2014-01-01T23:59:59.000Z

246

Guardian | Cracking future for fabric that heals its own breaks Cracking future for fabric that heals its own breaks  

E-Print Network [OSTI]

that heals its own breaks Ian Sample looks at how self-healing materials inspired by nature could make cars. Manufacturing costs are dominated by the need to make high- performance materials as defect-free as possible

Aksay, Ilhan A.

247

Supramolecular DNA nanotechnology : discrete nanoparticle organization, three-dimensional DNA construction, and molecule templated DNA assembly.  

E-Print Network [OSTI]

??The field of structural DNA nanotechnology utilizes DNA's powerful base-pairing molecular recognition criteria to help solve real challenges facing researchers in material science and nanotechnology,… (more)

Aldaye, Faisal A., 1979-

2008-01-01T23:59:59.000Z

248

Are high-redshift DLA galxies Lyman-break galaxies?  

E-Print Network [OSTI]

We use deep HST STIS and NICMOS images of three spectroscopically confirmed galaxy counterparts of high-redshift damped Ly-alpha (DLA) absorbers (one of which is a new discovery) to test the hypothesis that high-redshift DLA galaxies are Lyman-break galaxies. If this hypothesis is correct the emission properties of DLA galaxies must lie within the range of emission properties measured for Lyman-break galaxies of similar absolute magnitude. This will be true regardless of selection biases in the sample of detected DLA galaxies. We test this prediction using several emission properties: half-light radius, radial profile (Sersic n parameter), optical-to-near-infrared colour, morphology, Ly alpha emission equivalent width, and Ly alpha emission velocity structure. In all cases the measured values for the DLA galaxies lie within the range measured for the population of Lyman-break galaxies. None of the measurements is in conflict with the prediction. We conclude that the measured emission properties of the three DLA galaxies studied here are consistent with the conjecture that high-redshift DLA galaxies are Lyman-break galaxies. We show that this result does not conflict with the observation that the few high-redshift DLA galaxies discovered are mostly fainter than spectroscopically confirmed L* Lyman-break galaxies.

P. Møller; S. J. Warren; S. M. Fall; J. U. Fynbo; P. Jakobsen

2002-03-21T23:59:59.000Z

249

Autonomous Programmable Biomolecular Devices Using Self-Assembled DNA Nanostructures  

E-Print Network [OSTI]

-Assembled DNA Nanostructures: · use synthetic DNA to self-assemble into DNA nanostructure devices. Goals

Reif, John H.

250

SB Electronics Breaks Ground on New Factory | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

SB Electronics Breaks Ground on New Factory SB Electronics Breaks Ground on New Factory SB Electronics Breaks Ground on New Factory April 29, 2010 - 5:22pm Addthis U.S. Rep. Peter Welch (from left), Vermont Lt. Gov. Brian Dubie, SBE board member Win Hunter, SBE board chair Stan Fishkin, Assi U.S. Rep. Peter Welch (from left), Vermont Lt. Gov. Brian Dubie, SBE board member Win Hunter, SBE board chair Stan Fishkin, Assi Paul Lester Communications Specialist, Office of Energy Efficiency and Renewable Energy A Vermont company broke ground on a new factory that will produce cutting-edge technology for electric and hybrid cars and create more than 100 jobs. The event ushering in SB Electronics' power ring capacitor facility in Barre was attended by Vermont Gov. Jim Douglas and federal, state and local

251

Deputy Secretary Poneman Attends Ground Breaking at Tennessee Advanced  

Broader source: Energy.gov (indexed) [DOE]

Attends Ground Breaking at Tennessee Attends Ground Breaking at Tennessee Advanced Vehicle Battery Plant Deputy Secretary Poneman Attends Ground Breaking at Tennessee Advanced Vehicle Battery Plant May 26, 2010 - 12:00am Addthis Smyrna, TN - Today, U.S. Deputy Secretary of Energy Daniel Poneman participated in the groundbreaking ceremony for Nissan North America's advanced battery manufacturing facility in Smyrna, Tennessee. This past January the Department closed a $1.4 billion loan with Nissan North America to retool the Smyrna factory to build advanced electric automobiles and an advanced battery manufacturing facility. "I'm excited about the future we have begun to build here today -- a future where America's workers have good jobs, making clean cars that will reduce our dependence on oil and help us transition to a clean energy economy,"

252

Symmetry Breaking of H2 Dissociation by a Single Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Symmetry Breaking of H2 Dissociation by a Single Photon Print Symmetry Breaking of H2 Dissociation by a Single Photon Print A single hydrogen (or deuterium) molecule consists of only two protons (deuterons) and two electrons and is perfectly symmetric. Linearly polarized photons are similarly symmetric. So one might think that the angular distribution of photoelectrons resulting from photoionization of the molecule by the photon accompanied by dissociation into a hydrogen atom and a hydrogen ion would itself be symmetric. However, an international team of researchers from Germany, Spain, and the U.S. has now shown that this need not be the case. When there are multiple quantum paths for the process, interference between waves in the coherent superposition of electron states (which exists when the molecular fragments are still close together) skews the distribution by breaking the molecular symmetry.

253

Symmetry Breaking of H2 Dissociation by a Single Photon  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Symmetry Breaking of H2 Dissociation by a Single Photon Print Symmetry Breaking of H2 Dissociation by a Single Photon Print A single hydrogen (or deuterium) molecule consists of only two protons (deuterons) and two electrons and is perfectly symmetric. Linearly polarized photons are similarly symmetric. So one might think that the angular distribution of photoelectrons resulting from photoionization of the molecule by the photon accompanied by dissociation into a hydrogen atom and a hydrogen ion would itself be symmetric. However, an international team of researchers from Germany, Spain, and the U.S. has now shown that this need not be the case. When there are multiple quantum paths for the process, interference between waves in the coherent superposition of electron states (which exists when the molecular fragments are still close together) skews the distribution by breaking the molecular symmetry.

254

Deputy Secretary Poneman Attends Ground Breaking at Tennessee Advanced  

Broader source: Energy.gov (indexed) [DOE]

Poneman Attends Ground Breaking at Tennessee Poneman Attends Ground Breaking at Tennessee Advanced Vehicle Battery Plant Deputy Secretary Poneman Attends Ground Breaking at Tennessee Advanced Vehicle Battery Plant May 26, 2010 - 12:00am Addthis Smyrna, TN - Today, U.S. Deputy Secretary of Energy Daniel Poneman participated in the groundbreaking ceremony for Nissan North America's advanced battery manufacturing facility in Smyrna, Tennessee. This past January the Department closed a $1.4 billion loan with Nissan North America to retool the Smyrna factory to build advanced electric automobiles and an advanced battery manufacturing facility. "I'm excited about the future we have begun to build here today -- a future where America's workers have good jobs, making clean cars that will reduce our dependence on oil and help us transition to a clean energy economy,"

255

Wind Power Reliability: Breaking Down a Barrier | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Wind Power Reliability: Breaking Down a Barrier Wind Power Reliability: Breaking Down a Barrier Wind Power Reliability: Breaking Down a Barrier June 25, 2010 - 12:16pm Addthis EnerNex Corporation is developing documentation and validating generic wind turbine and plant models that test reliability. | File photo EnerNex Corporation is developing documentation and validating generic wind turbine and plant models that test reliability. | File photo Stephen Graff Former Writer & editor for Energy Empowers, EERE The steady increase of wind power on the grid presents new challenges for power system operators charged with making sure the grid stays up and running. "We need to ensure that we are going down a path that will lead to better reliability [with wind power]," said Bob Zavadil, an executive vice

256

Breaking a Pocket of Resistance in the Fight Against Cancer  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Breaking a Pocket of Resistance in Breaking a Pocket of Resistance in the Fight Against Cancer Breaking a Pocket of Resistance in the Fight Against Cancer Print Thursday, 12 December 2013 11:55 ras protein The new class of inhibitors interacts with a specific mutation (Glycine to Cysteine) associated with a number of types of lung cancer. Mutations in the protein K-RAS are a very common cause for certain types of human cancers and are generally associated with a poor response to standard therapies. RAS, an abbreviation of Rat Sarcoma, is a nucleotide binding protein that responds to chemical signals (nucleotides). When in the "on" state, RAS activates other proteins, resulting in a cascade of biochemical processes; in the "off" state, RAS remains inactive. Mutations in the RAS

257

Energy Department Training Breaks New Ground | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Training Breaks New Ground Training Breaks New Ground Energy Department Training Breaks New Ground December 3, 2013 - 1:00pm Addthis The Federal Energy Management Program is now an authorized provider of continuing education units from the International Association for Continuing Education and Training. Watch the video above to learn more. Timothy Unruh FEMP Program Manager High quality education for federal government employees helps streamline operations, improve services, and ensure that taxpayer dollars are spent wisely. This is why I am pleased to announce the Energy Department's Federal Energy Management Program (FEMP) has earned the designation as an "Authorized Provider" of continuing education units (CEUs) by the prestigious International Association for Continuing Education and Training

258

NREL: News Feature - NREL Breaks Down Walls for Biofuels  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

NREL Breaks Down Walls for Biofuels NREL Breaks Down Walls for Biofuels November 30, 2009 Researchers at the National Renewable Energy Laboratory (NREL) and ethanol producers are racing to come up with ways to make ethanol from cellulosic biomass that are cheaper and easier to produce than current methods. But they are hitting a wall. Cell walls in plants are making the production of cellulosic ethanol a challenge. So researchers are creating their own computer program to help model and break down the tiny fibers of cellulose - or fibrils - found in plant cells. Although ethanol is becoming more available to consumers, NREL is working closely with the U.S. Department of Energy (DOE) to meet a quickly approaching goal to produce competitively priced ethanol for $1.50 per gallon by 2012. Why the rush? DOE believes this is the price at which

259

Lorentz symmetry breaking as a quantum field theory regulator  

Science Journals Connector (OSTI)

Perturbative expansions of quantum field theories typically lead to ultraviolet (short-distance) divergences requiring regularization and renormalization. Many different regularization techniques have been developed over the years, but most regularizations require severe mutilation of the logical foundations of the theory. In contrast, breaking Lorentz invariance, while it is certainly a radical step, at least does not damage the logical foundations of the theory. I shall explore the features of a Lorentz symmetry breaking regulator in a simple polynomial scalar field theory and discuss its implications. In particular, I shall quantify just “how much” Lorentz symmetry breaking is required to fully regulate the quantum theory and render it finite. This scalar field theory provides a simple way of understanding many of the key features of Ho?ava’s recent article [Phys. Rev. D 79, 084008 (2009)] on 3+1 dimensional quantum gravity.

Matt Visser

2009-07-23T23:59:59.000Z

260

Modulated Tool-Path (MTP) Chip Breaking System  

SciTech Connect (OSTI)

The Modulated Tool-Path (MTP) Chip Breaking System produces user-selectable chip lengths and workpiece finishes and is compatible with any material, workpiece shape, and depth of cut. The MTP chip breaking system consistently creates the desired size of chips regardless of workpiece size, shape, or material, and the machine operator does not need to make any adjustments during the machining operation. The system's programmer configures the part program that commands the machine tool to move in a specific fashion to deliver the desired part size, shape, chip length, and workpiece surface finish. The MTP chip breaking system helps manufacturers avoid the detrimental effects of continuous chips, including expensive repair costs, delivery delays, and hazards to personnel.

Graham, K. B.

2010-04-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


261

Ground Breaking of Blythe Solar Power Project | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Ground Breaking of Blythe Solar Power Project Ground Breaking of Blythe Solar Power Project Ground Breaking of Blythe Solar Power Project June 20, 2011 - 2:16pm Addthis Secretary Chu Secretary Chu Former Secretary of Energy What will the project do? Blythe Solar Power Project will generate 1,000 megawatts of solar power, enough to power more than 300,000 single-family homes a year. Back in April, I had the pleasure of announcing that the Department of Energy had extended our largest conditional loan guarantee for a solar project - $2.1 billion to support a concentrating solar thermal power plant near Blythe, California. Last Friday, the Blythe Solar Power Project broke ground, beginning construction of a project that upon completion will generate 1,000 megawatts of solar power, enough to power more than 300,000

262

Reddit AMA: Marius Stan, energy researcher and Breaking Bad actor |  

Broader source: Energy.gov (indexed) [DOE]

Reddit AMA: Marius Stan, energy researcher and Breaking Bad actor Reddit AMA: Marius Stan, energy researcher and Breaking Bad actor Reddit AMA: Marius Stan, energy researcher and Breaking Bad actor February 14, 2013 - 12:36pm Addthis Marius Stan, computational energy scientist from Argonne National Lab, submits his verification photo as part of an informal question and answer session with Internet users on the Ask Me Anything section of the social website Reddit. Marius Stan, computational energy scientist from Argonne National Lab, submits his verification photo as part of an informal question and answer session with Internet users on the Ask Me Anything section of the social website Reddit. Michael Hess Michael Hess Former Digital Communications Specialist, Office of Public Affairs What is an Reddit AMA? AMA stands for "Ask me anything."

263

Margins in high temperature leak-before-break assessments  

SciTech Connect (OSTI)

Developments in the defect assessment procedure R6 to include high-temperature mechanisms in Leak-before-Break arguments are described. In particular, the effect of creep on the time available to detect a leak and on the crack opening area, and hence leak rate, is discussed. The competing influence of these two effects is emphasized by an example. The application to Leak-before-Break of the time-dependent failure assessment diagram approach for high temperature defect assessment is then outlined. The approach is shown to be of use in assessing the erosion of margins by creep.

Budden, P.J.; Hooton, D.G.

1997-04-01T23:59:59.000Z

264

Charge and CP symmetry breaking in two Higgs doublet models  

E-Print Network [OSTI]

We show that, for the most generic model with two Higgs doublets possessing a minimum that preserves the $U(1)_{em}$ symmetry, charge breaking (CB) cannot occur. If CB does not occur, the potential could have two different minima, and there is in principle no general argument to show which one is the deepest. The depth of the potential at a stationary point that breaks CB or CP, relative to the $U(1)_{em}$ preserving minimum, is proportional to the squared mass of the charged or pseudoscalar Higgs, respectively.

A. Barroso; P. M. Ferreira; R. Santos

2005-11-07T23:59:59.000Z

265

How does a thermal binary crystal break under shear?  

E-Print Network [OSTI]

When exposed to strong shearing, the particles in a crystal will rearrange and ultimately, the crystal will break by forming large nonaffine defects. Even for the initial stage of this process, only little effort has been devoted to the understanding of the breaking process on the scale of the individual particle size for thermalized mixed crystals. Here, we explore the shear-induced breaking for an equimolar two-dimensional binary model crystal with a high interaction asymmetry between the two different species such that the initial crystal has an intersecting square sublattice of the two constituents. Using Brownian dynamics computer simulations, we show that the combination of shear and thermal fluctuations leads to a characteristic hierarchical breaking scenario where initially, the more strongly coupled particles are thermally distorted, paving the way for the weakly coupled particles to escape from their cage. This in turn leads to mobile defects which may finally merge, proliferating a cascade of defects, which triggers the final breakage of the crystal. This scenario is in marked contrast to the breakage of one-component crystals close to melting. Moreover, we explore the orientational dependence of the initial shear direction relative to the crystal orientation and compare this to the usual melting scenario without shear. Our results are verifiable in real-space experiments of superparamagnetic colloidal mixtures at a pending air-water interface in an external magnetic field where the shear can be induced by an external laser field.

Tobias Horn; Hartmut Löwen

2014-11-21T23:59:59.000Z

266

Vacuum condensates, flavor mixing and spontaneous supersymmetry breaking  

E-Print Network [OSTI]

Spontaneous supersymmetry (SUSY) breaking is revealed in all phenomena in which vacuum condensates are physically relevant. The dynamical breakdown of SUSY is generated by the condensates themselves, which lift the zero point energy. Evidence is presented in the case of the Wess-Zuimino model, and the flavor mixing case is treated in detail.

Antonio Capolupo; Marco Di Mauro

2013-01-05T23:59:59.000Z

267

Dimension-5 operators in a Gauge Mediated Supersymmetry Breaking Model  

E-Print Network [OSTI]

We study the novel features in a model with Gauge Mediated Supersymmetry Breaking. If the messenger fields have positive R-parity, there will be new sources of flavor violations. We show that the dimension-5 operators will be quite important. When dressing these operators by wino-loops, the constraints on them by the present data are given.

Da-Xin Zhang

2004-12-28T23:59:59.000Z

268

Towards breaking temperature equilibrium in multi-component Eulerian schemes  

SciTech Connect (OSTI)

We investigate the effects ofthermal equilibrium on hydrodynamic flows and describe models for breaking the assumption ofa single temperature for a mixture of components in a cell. A computational study comparing pressure-temperature equilibrium simulations of two dimensional implosions with explicit front tracking is described as well as implementation and J-D calculations for non-equilibrium temperature methods.

Grove, John W [Los Alamos National Laboratory; Masser, Thomas [Los Alamos National Laboratory

2009-01-01T23:59:59.000Z

269

Aeration Due to Breaking Waves. Part I: Bubble Populations  

Science Journals Connector (OSTI)

The population of bubbles produced by breaking waves in (10 m) winds of up to 12 m s?1 is analyzed using calibrated images from a vertical pencil-beam sonar system placed on the seabed near the Dutch coast. The structure in the images is ...

A. Graham; D. K. Woolf; A. J. Hall

2004-05-01T23:59:59.000Z

270

Biological Effects of Space Radiation on Human Cells: History, Advances and Outcomes  

Science Journals Connector (OSTI)

......XIV crossed intense solar flares explaining...and clo- nogenic cell survival assays that...Although the onboard technology available did not...were likely due to solar flares. From all...time variation of solar cosmic rays during...double-strand breaks in human cells: history, progress......

Mira Maalouf; Marco Durante; Nicolas Foray

2011-03-01T23:59:59.000Z

271

Ionizing radiation damage to the folded chromosome of Escherichia coli K-12: sedimentation properties of irradiated nucleoids and chromosomal deoxyribonucleic acid.  

Science Journals Connector (OSTI)

...double-strand breaks by ionizing radiation listed in Table 2 were calculated...4, 5). For this reason, doses of ionizing radiation in excess of 10 krads were used...the biologically significant dose range of less than 10 krads suggested...

K M Ulmer; R F Gomez; A J Sinskey

1979-05-01T23:59:59.000Z

272

Review Paper. Ancient DNA  

Science Journals Connector (OSTI)

...poorly char- acterized (Gilbert et al. 2003a,b...research has been done in microbiology departments where the...unlikely to preserve DNA (Gilbert et al. 2005a). This...Smith, B. D., Gilbert, M. T. P., Cooper...the tenacity of life. Microbiology 140, 25132529. Kim...

2005-01-01T23:59:59.000Z

273

Recombinant Modified Vaccinia Virus Ankara Generating Excess Early Double-Stranded RNA Transiently Activates Protein Kinase R and Triggers Enhanced Innate Immune Responses  

Science Journals Connector (OSTI)

...interferon beta) were purchased from PBL Assay Science (Piscataway, NJ, USA). Murine IFN-alpha...adaptive immunity by the innate immune system. Science 327 :291-295. doi: 10.1126/science.1183021 . 6. Frenz, T , Z Waibler, J Hofmann...

Michael Wolferstätter; Marc Schweneker; Michaela Späth; Susanne Lukassen; Marieken Klingenberg; Kay Brinkmann; Ursula Wielert; Henning Lauterbach; Hubertus Hochrein; Paul Chaplin; Mark Suter; Jürgen Hausmann

2014-10-08T23:59:59.000Z

274

Noncatalytic Ions Direct the RNA-Dependent RNA Polymerase of Bacterial Double-Stranded RNA Virus ?6 from De Novo Initiation to Elongation  

Science Journals Connector (OSTI)

...the interaction between heparin and a battery of mutant enzymes (Fig. 4A). Mutations...like WT) has a significantly lower thermal stability than WT even in the presence...and structure refinement.) Fig. S1 (Thermal denaturation curves.) Fig. S2 (Electron...

Sam Wright; Minna M. Poranen; Dennis H. Bamford; David I. Stuart; Jonathan M. Grimes

2011-12-28T23:59:59.000Z

275

Recognition of DNA by Synthetic Antibodies  

Science Journals Connector (OSTI)

Recognition of DNA by Synthetic Antibodies ... The recombinant anti-ssDNA Fab, DNA-1, and 16 heavy chain complementarity determining region 3 (HCDR3) mutant variants were selected for thermodynamic characterization of ssDNA binding. ...

Shana M. Barbas; Peter Ghazal; Carlos F. Barbas III; Dennis R. Burton

1994-03-01T23:59:59.000Z

276

Nuclear DNA Amounts in Angiosperms  

Science Journals Connector (OSTI)

27 May 1976 research-article Nuclear DNA Amounts in Angiosperms M. D. Bennett...number of angiosperm species for which nuclear DNA amount estimates have been made has...is overdue. This paper lists absolute nuclear DNA amounts for 753 angiosperm species...

1976-01-01T23:59:59.000Z

277

DNA Structural Nanotechnology Duke University  

E-Print Network [OSTI]

DNA Structural Nanotechnology John Reif Duke University Graduate Students: Harish Chandran&Caltech Tube Lattices #12;Ned Seeman New York University, USA Ned Seeman: Father of DNA Nanotechnology His Initial Ideas & Motivation for DNA Nanotechnology #12;Cube Chen & Seeman, Nature350:631 (1991) Truncated

Reif, John H.

278

Heuristic for Maximizing DNA Reuse in Synthetic DNA Library Assembly  

Science Journals Connector (OSTI)

Heuristic for Maximizing DNA Reuse in Synthetic DNA Library Assembly ... In concert with entirely de novo synthesis, a swathe of alternative DNA assembly methods are being introduced(4-6) that concatenate parts from hundreds of base pairs in length, through gene fusions, to synthetic biological devices built from catalogued parts, up to megabase fragments and entire chromosomes. ... De novo synthesis relies on synthetic oligos that are inherently error prone, and therefore, reusing existing error-free DNA in constructing new DNA provides an inherent advantage. ...

Jonathan Blakes; Ofir Raz; Uriel Feige; Jaume Bacardit; Pawe? Widera; Tuval Ben-Yehezkel; Ehud Shapiro; Natalio Krasnogor

2014-02-20T23:59:59.000Z

279

Experimental investigation of small-scale breaking waves : flow visualization across the air-water interface  

E-Print Network [OSTI]

The dynamics of breaking waves significantly affect air-sea fluxes of heat, momentum, mass and energy across the ocean interface. Breaking waves also contribute considerable loading to offshore and coastal structures, and ...

McDonald, Angus Kai

2005-01-01T23:59:59.000Z

280

Navier-Stokes simulations of steep breaking water waves with a coupled air-water interface  

E-Print Network [OSTI]

Wave breaking on the ocean surface significantly facilitates the transfer of mass, momentum, heat and energy across the air-sea interface. In the context of the near field flow about a surface ship, the breaking bow wave ...

Hendrickson, Kelli L

2005-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


281

Quantitative imaging of the air-water flow fields formed by unsteady breaking waves  

E-Print Network [OSTI]

An experimental method for simultaneously measuring the velocity fields on the air and water side of unsteady breaking waves is presented. The method is applied to breaking waves to investigate the physics of the air and ...

Belden, Jesse (Jesse Levi)

2009-01-01T23:59:59.000Z

282

Katz A: Breaking the silence on cancer and sexuality: a handbook for healthcare providers  

Science Journals Connector (OSTI)

Although Breaking the Silence does contain correct factual information about the effects ... the book states that it is a “Handbook for Healthcare Providers” and the back cover...Breaking the Silence clearly spea...

Kelly D. Skinner

2008-06-01T23:59:59.000Z

283

Mapping the binding site of aflatoxin B/sub 1/ in DNA: systematic analysis of the reactivity of aflatoxin B/sub 1/ with guanines in different DNA sequences  

SciTech Connect (OSTI)

The mutagenic and carcinogenic chemical aflatoxin B/sub 1/ (AFB/sub 1/) reacts almost exclusively at the N(7)-position of guanine following activation to its reactive form, the 8,9-epoxide (AFB/sub 1/ oxide). In general N(7)-guanine adducts yield DNA strand breaks when heated in base, a property that serves as the basis for the Maxam-Gilbert DNA sequencing reaction specific for guanine. Using DNA sequencing methods, other workers have shown that AFB/sub 1/ oxide gives strand breaks at positions of guanines; however, the guanine bands varied in intensity. This phenomenon has been used to infer that AFB/sub 1/ oxide prefers to react with guanines in some sequence contexts more than in others and has been referred to as sequence specificity of binding. Herein, data on the reaction of AFB/sub 1/ oxide with several synthetic DNA polymers with different sequences are presented, and (following hydrolysis) adduct levels are determine by high-pressure liquid chromatography. These results reveal that for AFB/sub 1/ oxide (1) the N(7)-guanine adduct is the major adduct found in all of the DNA polymers, (2) adduct levels vary in different sequences, and, thus, sequence specificity is also observed by this more direct method, and (3) the intensity of bands in DNA sequencing gels is likely to reflect adduct levels formed at the N(7)-position of guanine. Knowing this, a reinvestigation of the reactivity of guanines in different DNA sequences using DNA sequencing methods was undertaken. Methods are developed to determine the X (5'-side) base and the Y (3'-side) base are most influential in determining guanine reactivity. These rules in conjunction with molecular modeling studies were used to assess the binding sites that might be utilized by AFB/sub 1/ oxide in its reaction with DNA.

Benasutti, M.; Ejadi, S.; Whitlow, M.D.; Loechler, E.L.

1988-01-12T23:59:59.000Z

284

DOE Joint Genome Institute: Breaking down cellulose without blasting  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

4, 2011 4, 2011 Breaking down cellulose without blasting lignin: "Dry rot" genome offers lessons for biofuel pretreatment WALNUT CREEK, Calif.-Feared by realtors and homeowners alike, dry rot due to the fungus Serpula lacrymans causes millions of dollars worth of damage to homes and buildings around the world. This brown rot fungus' capacity to break down the cellulose in wood led to its selection for sequencing by the U.S. Department of Energy (DOE) Joint Genome Institute (JGI) in 2007, with the goal of identifying the enzymes involved in the degradation process and using the information to improve cellulosic biofuels production. Photo: A variant of Serpula lacrymans causes dry rot. (Dave Brown via Flickr/Creative Commons Attribution 2.0) As reported online July 14 in Science Express, an international team of

285

Breaking the Disk/Halo Degeneracy with Gravitational Lensing  

E-Print Network [OSTI]

The degeneracy between the disk and the dark matter contribution to galaxy rotation curves remains an important uncertainty in our understanding of disk galaxies. Here we discuss a new method for breaking this degeneracy using gravitational lensing by spiral galaxies, and apply this method to the spiral lens B1600+434 as an example. The combined image and lens photometry constraints allow models for B1600+434 with either a nearly singular dark matter halo, or a halo with a sizable core. A maximum disk model is ruled out with high confidence. Further information, such as the circular velocity of this galaxy, will help break the degeneracies. Future studies of spiral galaxy lenses will be able to determine the relative contribution of disk, bulge, and halo to the mass in the inner parts of galaxies.

Ariyeh H. Maller; Luc Simard; Puragra Guhathakurta; Jens Hjorth; Andreas O. Jaunsen; Ricardo A. Flores; Joel R. Primack

1999-10-12T23:59:59.000Z

286

Landscape of Supersymmetry Breaking Vacua in Geometrically Realized Gauge Theories  

E-Print Network [OSTI]

We study vacuum structure of N=1 supersymmetric quiver gauge theories which can be realized geometrically by D brane probes wrapping cycles of local Calabi-Yau three-folds. In particular, we show that the A_2 quiver theory with gauge group U(N_1) \\times U(N_2) with N_1 / 2 landscape of inequivalent meta-stable vacua where supersymmetry is dynamically broken and all the moduli are stabilized. Each vacuum has distinct unbroken gauge symmetry. B-terms generated by the supersymmetry breaking give rise to gaugino masses at one-loop, and we are left with the bosonic pure Yang-Mills theory in the infrared. We also identify the supersymmetric vacua in this model using their infrared free descriptions and show that the decay rates of the supersymmetry breaking vacua into the supersymmetric vacua can be made parametrically small.

Hirosi Ooguri; Yutaka Ookouchi

2006-07-07T23:59:59.000Z

287

Single-Sector Supersymmetry Breaking, Chirality, and Unification  

SciTech Connect (OSTI)

Calculable single-sector models provide an elegant framework for generating the flavor textures via compositeness, breaking supersymmetry, and explaining the electroweak scale. Such models may be realized naturally in supersymmetric QCD with additional gauge singlets (SSQCD), though it remains challenging to construct models without a surfeit of light exotic states where the Standard Model index emerges naturally. We classify possible single-sector models based on Sp confining SSQCD according to their Standard Model index and number of composite messengers. This leads to simple, calculable models that spontaneously break supersymmetry, reproduce the fermion flavor hierarchy, and explain the Standard Model index dynamically with little or no additional matter. At low energies these theories realize a 'more minimal' soft spectrum with direct mediation and a gravitino LSP.

Behbahani, Siavosh R.; /SLAC /Stanford U., Phys. Dept.; Craig, Nathaniel; /Stanford U., Phys. Dept. /Princeton, Inst. Advanced Study /Rutgers U., Piscataway; Torroba, Gonzalo; /SLAC /Stanford U., Phys. Dept.

2011-08-12T23:59:59.000Z

288

Fleet DNA (Presentation)  

SciTech Connect (OSTI)

The Fleet DNA project objectives include capturing and quantifying drive cycle and technology variation for the multitude of medium- and heavy-duty vocations; providing a common data storage warehouse for medium- and heavy-duty vehicle fleet data across DOE activities and laboratories; and integrating existing DOE tools, models, and analyses to provide data-driven decision making capabilities. Fleet DNA advantages include: for Government - providing in-use data for standard drive cycle development, R&D, tech targets, and rule making; for OEMs - real-world usage datasets provide concrete examples of customer use profiles; for fleets - vocational datasets help illustrate how to maximize return on technology investments; for Funding Agencies - ways are revealed to optimize the impact of financial incentive offers; and for researchers -a data source is provided for modeling and simulation.

Walkokwicz, K.; Duran, A.

2014-06-01T23:59:59.000Z

289

Universality-breaking effects in leptonic Z decays  

Science Journals Connector (OSTI)

We analyze the possibility of universality violation in diagonal leptonic decays of the Z boson, in the context of interfamily ‘‘seesaw’’ models. In a minimal extension of the standard model with right-handed neutrino fields, we find that universality-breaking effects increase quadratically with the heavy Majorana neutrino mass and may be observed in the current experiments at the CERN e+e- collider LEP.

J. Bernabéu; J. G. Körner; A. Pilaftsis; K. Schilcher

1993-10-25T23:59:59.000Z

290

Is Privatization Enough? Finding Performance Breaks for UK Power Plants  

E-Print Network [OSTI]

can be retrofitted. Though for NOx (and particular gas-fired stations) these decrease thermal efficiency as they dial down the combustion temperature to reduce the nitrogen intake from the air (Martin et al., 2007). In the early 1990s National... should be positive for CO2 and SO2 but negative for NOx at least for gas-fired stations. 5 Empirical Model Our model has three main characteristics: the generation technology, efficiency, and the structural breaks in efficiency. As usual...

Triebs, Thomas P.; Pollitt, Michael G.

291

Chiral Mesophases of DNA  

E-Print Network [OSTI]

In the hexagonal columnar phase of chiral polymers a bias towards cholesteric twist competes with braiding along an average direction. When the chirality is strong, topological defects proliferate, leading to either a tilt grain boundary phase or a new ``moire state'' with twisted bond order. This moire phase can melt leading to a new phase: the chiral hexatic. I will discuss some recent experimental results from the NIH on DNA liquid crystals in the context of these theories.

Randall D. Kamien

1998-12-08T23:59:59.000Z

292

Radiation and viral DNA  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Radiation and viral DNA Radiation and viral DNA Name: Loretta L Lamb Age: N/A Location: N/A Country: N/A Date: N/A Question: Can viral DNA be changed through exposure to radiation? If so, what type of radiation will do this? Can these irradiated viruses cause changes in the genome of any human cells they may infect? Can these (or any) viruses actually cause cancer, or do they merely act as triggering devices for cancer? Replies: In theory, any nucleic acid (viral or otherwise) can be changed by exposure to many kinds of radiation. Depending on the type of virus, these may then change the human cells that they infect. Although there are many different things that are being implicated in causing cancers, it looks like a fairly common model involves the sequential "knockout" of several human genes. Viruses may be one cause of such gene changes, radiation and other environmental causes may also contribute. Some of these changes may be inherited through families, so it becomes more likely that the environmental factors may happen to "hit" the right places in cells to cause cancers in these families. If you ask something more specific, perhaps I can focus my response a bit more

293

DNA Duplications and Deletions Help Determine Health  

Science Journals Connector (OSTI)

...with a microscope can break off, attach in...missing, it can shut down production altogether...brain of the protein {alpha}-synuclein. But unraveling...gene that codes an amylase, an enzyme that breaks down starch. CREDIT: CHARLES...

Jon Cohen

2007-09-07T23:59:59.000Z

294

Unscheduled DNA synthesis and mitochondrial DNA synthetic rate following injury of the facial nerve  

Science Journals Connector (OSTI)

Unscheduled DNA synthesis (UDS) of nuclear DNA and mitochondrial (mt) DNA synthetic rates were determined autoradiographically in different cell ... nerve transection. In addition to an increased synthetic rate ...

H. Korr; V. Philippi; C. Helg; J. Schiefer; M. B. Graeber…

1997-11-01T23:59:59.000Z

295

A molecular dynamics simulation of DNA damage induction by ionizing radiation  

E-Print Network [OSTI]

We present a multi-scale simulation of early stage of DNA damages by the indirect action of hydroxyl ($^\\bullet$OH) free radicals generated by electrons and protons. The computational method comprises of interfacing the Geant4-DNA Monte Carlo with the ReaxFF molecular dynamics software. A clustering method was employed to map the coordinates of $^\\bullet$OH-radicals extracted from the ionization track-structures onto nano-meter simulation voxels filled with DNA and water molecules. The molecular dynamics simulation provides the time evolution and chemical reactions in individual simulation voxels as well as the energy-landscape accounted for the DNA-$^\\bullet$OH chemical reaction that is essential for the first principle enumeration of hydrogen abstractions, chemical bond breaks, and DNA-lesions induced by collection of ions in clusters less than the critical dimension which is approximately 2-3 \\AA. We show that the formation of broken bonds leads to DNA base and backbone damages that collectively propagate ...

Abolfath, Ramin M; Chen, Zhe J; Nath, Ravinder

2013-01-01T23:59:59.000Z

296

The impact of homologous recombination repair deficiency on depleted uranium clastogenicity in Chinese hamster ovary cells: XRCC3 protects cells from chromosome aberrations, but increases chromosome fragmentation  

Science Journals Connector (OSTI)

Abstract Depleted uranium (DU) is extensively used in both industry and military applications. The potential for civilian and military personnel exposure to DU is rising, but there are limited data on the potential health hazards of DU exposure. Previous laboratory research indicates DU is a potential carcinogen, but epidemiological studies remain inconclusive. DU is genotoxic, inducing DNA double strand breaks, chromosome damage and mutations, but the mechanisms of genotoxicity or repair pathways involved in protecting cells against DU-induced damage remain unknown. The purpose of this study was to investigate the effects of homologous recombination repair deficiency on DU-induced genotoxicity using RAD51D and XRCC3-deficient Chinese hamster ovary (CHO) cell lines. Cells deficient in XRCC3 (irs1SF) exhibited similar cytotoxicity after DU exposure compared to wild-type (AA8) and XRCC3-complemented (1SFwt8) cells, but DU induced more break-type and fusion-type lesions in XRCC3-deficient cells compared to wild-type and XRCC3-complemented cells. Surprisingly, loss of RAD51D did not affect DU-induced cytotoxicity or genotoxicity. DU induced selective X-chromosome fragmentation irrespective of RAD51D status, but loss of XRCC3 nearly eliminated fragmentation observed after DU exposure in wild-type and XRCC3-complemented cells. Thus, XRCC3, but not RAD51D, protects cells from DU-induced breaks and fusions and also plays a role in DU-induced chromosome fragmentation.

Amie L. Holmes; Kellie Joyce; Hong Xie; Carolyne Falank; John M. Hinz; John Pierce Wise Sr.

2014-01-01T23:59:59.000Z

297

DNA attachment to support structures  

SciTech Connect (OSTI)

Microscopic beads or other structures are attached to nucleic acids (DNA) using a terminal transferase. The transferase adds labeled dideoxy nucleotide bases to the ends of linear strands of DNA. The labels, such as the antigens digoxigenin and biotin, bind to the antibody compounds or other appropriate complementary ligands, which are bound to the microscopic beads or other support structures. The method does not require the synthesis of a synthetic oligonucleotide probe. The method can be used to tag or label DNA even when the DNA has an unknown sequence, has blunt ends, or is a very large fragment (e.g., >500 kilobase pairs).

Balhorn, Rodney L. (Livermore, CA); Barry, Christopher H. (Fresno, CA)

2002-01-01T23:59:59.000Z

298

Assessing the Risk of Mercury in Drinking Water after UV Lamp Breaks Page 1 Assessing the Risk of Mercury in Drinking Water after UV Lamp Breaks  

E-Print Network [OSTI]

Assessing the Risk of Mercury in Drinking Water after UV Lamp Breaks Page 1 Assessing the Risk of Mercury in Drinking Water after UV Lamp Breaks Heidi Borchers University of New Hampshire, Environmental Ultraviolet (UV) lamps generate ultraviolet light through the vaporization of elemental mercury, by using

299

A Route to Scale up DNA Origami Using DNA Tiles as Folding Staples  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

A Route to Scale up DNA Origami Using DNA Tiles as Folding Staples Authors: Zhao, Z., Yan, H., and Liu, Y. Title: A Route to Scale up DNA Origami Using DNA Tiles as Folding Staples...

300

A Model for Structure and Thermodynamics of ssDNA and dsDNA Near...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Structure and Thermodynamics of ssDNA and dsDNA Near a Surface:A Coarse Grained Approach. A Model for Structure and Thermodynamics of ssDNA and dsDNA Near a Surface:A Coarse...

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


301

Design of a New Fluorescent Cofactor for DNA Methyltransferases and Sequence-Specific Labeling of DNA  

Science Journals Connector (OSTI)

Sequence-specific labeling of DNA is of immense interest for analytical and functional studies of DNA. We present a novel approach for sequence-specific labeling of DNA using a newly designed fluorescent cofactor for the DNA methyltransferase from ...

Goran Pljevaljcic; Marc Pignot; Elmar Weinhold

2003-02-26T23:59:59.000Z

302

Cadmium sulfate and CdTe-quantum dots alter DNA repair in zebrafish (Danio rerio) liver cells  

SciTech Connect (OSTI)

Increasing use of quantum dots (QDs) makes it necessary to evaluate their toxicological impacts on aquatic organisms, since their contamination of surface water is inevitable. This study compares the genotoxic effects of ionic Cd versus CdTe nanocrystals in zebrafish hepatocytes. After 24 h of CdSO{sub 4} or CdTe QD exposure, zebrafish liver (ZFL) cells showed a decreased number of viable cells, an accumulation of Cd, an increased formation of reactive oxygen species (ROS), and an induction of DNA strand breaks. Measured levels of stress defense and DNA repair genes were elevated in both cases. However, removal of bulky DNA adducts by nucleotide excision repair (NER) was inhibited with CdSO{sub 4} but not with CdTe QDs. The adverse effects caused by acute exposure of CdTe QDs might be mediated through differing mechanisms than those resulting from ionic cadmium toxicity, and studying the effects of metallic components may be not enough to explain QD toxicities in aquatic organisms. - Highlights: • Both CdSO{sub 4} and CdTe QDs lead to cell death and Cd accumulation. • Both CdSO{sub 4} and CdTe QDs induce cellular ROS generation and DNA strand breaks. • Both CdSO{sub 4} and CdTe QDs induce the expressions of stress defense and DNA repair genes. • NER repair capacity was inhibited with CdSO{sub 4} but not with CdTe QDs.

Tang, Song; Cai, Qingsong [The Institute of Environmental and Human Health, Texas Tech University, Lubbock, TX 79416 (United States); Chibli, Hicham [Department of Biomedical Engineering, McGill University, Montréal, QC H3A 2B4 (Canada); Allagadda, Vinay [The Institute of Environmental and Human Health, Texas Tech University, Lubbock, TX 79416 (United States); Nadeau, Jay L. [Department of Biomedical Engineering, McGill University, Montréal, QC H3A 2B4 (Canada); Mayer, Gregory D., E-mail: greg.mayer@ttu.edu [The Institute of Environmental and Human Health, Texas Tech University, Lubbock, TX 79416 (United States)

2013-10-15T23:59:59.000Z

303

Z(4) model: Criticality and break-collapse method  

Science Journals Connector (OSTI)

Within a real-space renormalization-group (RG) framework, we study the criticality of the Z(4) ferromagnet on the square lattice. The phase diagram (exhibiting ferromagnetic, paramagnetic, and nematiclike phase) recovers all the available exact results, and possibly is of high precision everywhere. In particular, we establish the main asymptotic behaviors (bifurcation and Ising regions). In addition, we develop an operational procedure (break-collapse method) which considerably simplifies the exact calculation of arbitrary Z(4) two-terminal clusters (commonly appearing in RG approaches).

Ananias M. Mariz; Constantino Tsallis; Paulo Fulco

1985-11-01T23:59:59.000Z

304

CMB Anisotropies from Outflows in Lyman Break Galaxies  

E-Print Network [OSTI]

Thomson scattering of the Cosmic Microwave Background (CMB) on moving electrons in the outflows of Lyman Break Galaxies (LBGs) at redshifts 2-8 contributes to the small-scale CMB anisotropies. The net effect produced by each outflow depends on its level of deviation from spherical symmetry, caused either by an anisotropic energy injection from the nuclear starburst or quasar activity, or by an inhomogeneous intergalactic environment. We find that for plausible outflow parameters consistent with spectroscopic observations of LBGs, the induced CMB anisotropies on arcminute scales reach up to $\\sim 1 \\mu$K, comparable to the level produced during the epoch of reionization.

Daniel Babich; Abraham Loeb

2006-09-14T23:59:59.000Z

305

CPT- and Lorentz-symmetry breaking: a review  

E-Print Network [OSTI]

The breakdown of spacetime symmetries has recently been identified as a promising candidate signal for underlying physics, possibly arising through quantum-gravitational effects. This talk gives an overview over various aspects of CPT- and Lorentz-violation research. Particular emphasis is given to the interplay between CPT, Lorentz, and translation symmetry, mechanisms for CPT and Lorentz breaking, and the construction of a low-energy quantum-field description of such effect. This quantum field framework, called the SME, is employed to determine possible phenomenological consequences of CPT and Lorentz violation for neutral-meson interferometry.

Ralf Lehnert

2006-12-28T23:59:59.000Z

306

Spontaneous symmetry breaking and optimization of functional renormalization group  

E-Print Network [OSTI]

The requirement for the absence of spontaneous symmetry breaking in the d=1 dimension has been used to optimize the regulator dependence of functional renormalization group equations in the framework of the sine-Gordon scalar field theory. Results obtained by the optimization of this kind were compared to those of the Litim-Pawlowski and the principle of minimal sensitivity optimization scenarios. The optimal parameters of the compactly supported smooth (CSS) regulator, which recovers all major types of regulators in appropriate limits, have been determined beyond the local potential approximation, and the Litim limit of the CSS was found to be the optimal choice.

I. Nandori; I. G. Marian; V. Bacso

2014-02-27T23:59:59.000Z

307

DESIGN AND IMPLEMENTATION OF A BIOMOLECULAR CIRCUIT FOR TRACKING PROTEIN CONCENTRATION  

E-Print Network [OSTI]

the levels of two double stranded DNA species through sequestration and transcriptional regulation. Synthetic the expected task. I. INTRODUCTION As biomolecular circuits in synthetic biology increase in complexity feedback regulation is a critical hurdle for the design and engineering of complex synthetic circuits

Murray, Richard M.

308

Virus Research 140 (2009) 138146 Contents lists available at ScienceDirect  

E-Print Network [OSTI]

homepage: www.elsevier.com/locate/virusres The A312L 5 -UTR of Chlorella virus PBCV-1 is a translational Phycodnaviridae Chlorella viruses A312L gene Arabidopsis thaliana Agrobacterium-mediated transformation a b s t r a c t PBCV-1 (Paramecium bursaria Chlorella virus) is a large double stranded DNA virus

Graves, Michael V.

309

The Polymerase Chain Reaction and Branching Processes Fengzhu Sun  

E-Print Network [OSTI]

The Polymerase Chain Reaction and Branching Processes Fengzhu Sun Department of Mathematics, DRB is studied. We also study the distribution of the Hamming distance between two randomly chosen sequences long. The double-stranded DNA molecules are heated to near boiling temperature so that the double

Sun, Fengzhu - Sun, Fengzhu

310

Vet. Res. (2009) 40:11 www.vetres.org DOI: 10.1051/vetres:2008049  

E-Print Network [OSTI]

Camus-Bouclainville1,2* 1 INRA, UMR 1225, F-31076 Toulouse, France 2 Université de Toulouse ; ENVT ; UMR in death within two weeks [29]. * Corresponding author: c.camus@envt.fr MYXV has a double-stranded DNA

Paris-Sud XI, Université de

311

Development, Beam Characterization and Chromosomal Effectiveness of X-rays of RBC Characteristic X-ray Generator  

Science Journals Connector (OSTI)

......mis-rejoining of two DSBs by non-homologous end-joining (NHEJ). However, it is also...genome-environment interaction. In: Radiation and Humankind, Eds. Y. Shibata, S. Yamashita, M...Homologous recombination and non-homologous end-joining pathways of DNA double-strand......

Satoru Endo; Masaharu Hoshi; Jun Takada; Toshihiro Takatsuji; Yosuke Ejima; Shin Saigusa; Akira Tachibana; Masao S. Sasaki

2006-06-01T23:59:59.000Z

312

Substance-specific and shared transcription and epigenetic changes in the human hippocampus chronically exposed to cocaine and alcohol  

Science Journals Connector (OSTI)

...finger, CCCH-type with G patch domain 0.55 9.2E-05 0...the end of incubation for end repair. Synthesized double-stranded...the Klenow fragment for end repair. The 5' end of the DNA fragments...the Illumina Genome Analyzer Pipeline (GApipeline) and aligned...

Zhifeng Zhou; Qiaoping Yuan; Deborah C. Mash; David Goldman

2011-01-01T23:59:59.000Z

313

E-Print Network 3.0 - adducts strand breaks Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

its complement... to its high reactivity toward DNA and cellular proteins. The major acrolein-DNA adduct, -hydrox- ypropano... -hy- droxynonenal, and acrolein, that readily form...

314

DNA Meta-Molecules: Synthe4c Biology via DNA Nanostructures &  

E-Print Network [OSTI]

reaction - DNA walkers - Activatable tiles and assemblies (4) DNA-based synthetic biology (slides 107-122) - Synthetic biology - DNA-based meta molecules and their use in synthetic biology - Meta DNA #12;SelfDNA Meta-Molecules: Synthe4c Biology via DNA Nanostructures & Hybridiza4on Reac

Reif, John H.

315

Integrated Microfluidic Electrochemical DNA Sensor  

E-Print Network [OSTI]

of small scale fluid flow Laminar flow Easy to predict the flow patterns Very little diffusion This can make mixing difficult Small volumes Don't need to waste expensive reagents Easy fluid control;DNA Purification The DNA will be extracted using Invitrogen Charge Switch beads. Cellular Lysis

Fygenson, Deborah Kuchnir

316

Shelf?break tidally induced environmental influences on acoustic propagation  

Science Journals Connector (OSTI)

Continuous wave propagation in the 100–500 Hz band in littoral regions depends upon both time?dependent oceanography and bathymetry. The environmental influences interact nonlinearly in the acoustical time variation especially since the diurnal tidesurface height changes creates time?dependent total water depth. A submesoscale hydrodynamic model developed by Shen and Evans is used with tidal forcing and a simple shelf?break bathymetry to produce surface height variation and internal wave activity due to internal tide in a stratified ocean environment. A three?dimensional parabolic equation acoustic model is used to acoustically probe this environment at various bearings relative to the shelf break and the resulting internal tidal dynamics. In particular the acoustical results are examined for three?dimensional effects such as horizontal refraction. First the influence of bathymetry alone is shown and then compared to the full environment due to hydrodynamic action. The relative influences will then be compared by various measures such as modal decomposition acoustic energy summed over depth and signal gain degradation. [This research is sponsored by the ONR.

2004-01-01T23:59:59.000Z

317

Flavour symmetry breaking in the kaon parton distribution amplitude  

E-Print Network [OSTI]

We compute the kaon's valence-quark (twist-two parton) distribution amplitude (PDA) by projecting its Poincare'-covariant Bethe-Salpeter wave-function onto the light-front. At a scale \\zeta=2GeV, the PDA is a broad, concave and asymmetric function, whose peak is shifted 12-16% away from its position in QCD's conformal limit. These features are a clear expression of SU(3)-flavour-symmetry breaking. They show that the heavier quark in the kaon carries more of the bound-state's momentum than the lighter quark and also that emergent phenomena in QCD modulate the magnitude of flavour-symmetry breaking: it is markedly smaller than one might expect based on the difference between light-quark current masses. Our results add to a body of evidence which indicates that at any energy scale accessible with existing or foreseeable facilities, a reliable guide to the interpretation of experiment requires the use of such nonperturbatively broadened PDAs in leading-order, leading-twist formulae for hard exclusive processes instead of the asymptotic PDA associated with QCD's conformal limit. We illustrate this via the ratio of kaon and pion electromagnetic form factors: using our nonperturbative PDAs in the appropriate formulae, $F_K/F_\\pi=1.23$ at spacelike-$Q^2=17\\,{\\rm GeV}^2$, which compares satisfactorily with the value of $0.92(5)$ inferred in $e^+ e^-$ annihilation at $s=17\\,{\\rm GeV}^2$.

Chao Shi; Lei Chang; Craig D. Roberts; Sebastian M. Schmidt; Peter C. Tandy; Hong-Shi Zong

2014-06-12T23:59:59.000Z

318

Single Molecule Studies of Telomere DNA  

E-Print Network [OSTI]

2009) G-quadruplex DNA bound by a synthetic ligand is highly2009) G-quadruplex DNA bound by a synthetic ligand is highly2009) G-quadruplex DNA bound by a synthetic ligand is highly

Long, Xi

2014-01-01T23:59:59.000Z

319

DNA Origami: A History and Current Perspective  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

DNA origami' has emerged as one of the most promising assembly techniques in DNA nanotechnology with a broad range of applications. In the past two years alone, DNA origami has...

320

Comparison of two freshwater turtle species as monitors of radionuclide and chemical contamination: DNA damage and residue analysis  

SciTech Connect (OSTI)

Two species of turtles that occupy different ecological niches were compared for their usefulness as monitors of freshwater ecosystems where both low-level radioactive and nonradioactive contaminants are present. The pond slider (Trachemys scripta) and common snapping turtle (Chelydra serpentina) were analyzed for the presence of [sup 90]Sr, [sup 137]Cs, [sup 60]Co, and Hg, radionuclides and chemicals known to be present at the contaminated site, and single-strand breaks in liver DNA. The integrity of the DNA was examined by the alkaline unwinding assay, a technique that detects strand breaks as a biological marker of possible exposure to genotoxic agents. This measure of DNA damage was significantly increased in both species of turtles at the contaminated site compared with turtles of the same species at a reference site, and shows that contaminant-exposed populations were under more severe genotoxic stress than those at the reference site. The level of strand breaks observed at the contaminated site was high and in the range reported for other aquatic species exposed to deleterious concentrations of genotoxic agents such as chemicals and ionizing radiation. Statistically significantly higher concentrations of radionuclides and Hg were detected in the turtles from the contaminated area. Mercury concentrations were significantly higher in the more carnivorous snapping turtle compared with the slider; however, both species were effective monitors of the contaminants.

Meyers-Schoene, L. (Univ. of Tennessee, Knoxville, TN (United States)); Shugart, L.R.; Beauchamp, J.J.; Walton, B.T. (Oak Ridge National Lab., TN (United States))

1993-08-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


321

DNA strand breaks measured within 100 milliseconds of irradiation of Escherichia coli by 4 MeV electrons  

Science Journals Connector (OSTI)

...Oslo, Blindern, Oslo, Norway; t Department of Biophysics, Norsk Hydros Institute for Cancer Research, Montebello, Oslo 3...data analysis. Technical assistance from the Linac crew at the Norsk Hydro's Institute for Cancer Research is gratefully acknowledged...

I Johansen; T Brustad; W D Rupp

1975-01-01T23:59:59.000Z

322

Comparison of DNA Breaks at Entrance Channel and Bragg Peak Induced by Fast C6+ Ions–Influence of the Addition of Platinum Atoms on DNA–  

Science Journals Connector (OSTI)

......Structure Science, High Energy Accelerator Research Organization, Oho...Be4+ and B5+ .6) The nuclear fragmentation of C6+ results...be induced by fast ions in vacuum dry conditions,4,5) but...In this case again, the nuclear fragmentation does not contribute......

Noriko Usami; Katsumi Kobayashi; Ryoichi Hirayama; Yoshiya Furusawa; Erika Porcel; Sandrine Lacombe; Claude Le Sech

2010-01-01T23:59:59.000Z

323

Challenges and opportunities for structural DNA nanotechnology  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Challenges and opportunities for structural DNA nanotechnology Authors: Pinheiro, A. V., Han, D., Shih, W. M., and Yan, H. Title: Challenges and opportunities for structural DNA...

324

CSNI specialist meeting on leak-before-break in nuclear reactor piping: proceedings  

SciTech Connect (OSTI)

On September 1 and 2, 1983, the CSNI subcommittee on primary system integrity held a special meeting in Monterey, California, on the subject of leak-before-break in nuclear reactor piping systems. The purpose of the meeting was to provide an international forum for the exchange of ideas, positions, and research results; to identify areas requiring additional research and development; and to determine the general attitude toward acceptance of the leak-before-break concept. The importance of the leak-before-break issue was evidenced by excellent attendance at the meeting and through active participation by the meeting attendees. Approximately 125 people representing fifteen different nations attended the meeting. The meeting was divided into four technical sessions addressing the following areas: Application of Piping Fracture Mechanics to Leak-Before Break, Leak Rate and Leak Detection, Leak-Before-Break Studies, Methods and Results, Current and Proposed Positions on Leak-Before-Break.

Not Available

1984-08-01T23:59:59.000Z

325

ON THE EVOLUTION OF THE SPECTRAL BREAK IN THE AFTERGLOW OF GAMMA-RAY BURSTS  

SciTech Connect (OSTI)

The temporal evolution of the spectral break in the time-resolved spectral energy density of the broadband afterglow of gamma-ray bursts (GRBs) 091127 and 080319B was shown recently to be inconsistent with that expected for the cooling break in the standard fireball model of GRBs. Here we show that it is, however, in good agreement with the predicted temporal evolution of the smooth injection break/bend in the cannonball model of GRBs.

Dado, Shlomo; Dar, Arnon [Physics Department, Technion, Haifa 32000 (Israel)

2012-02-20T23:59:59.000Z

326

Homologous recombination and non-homologous end-joining repair pathways in bovine embryos with different developmental competence  

SciTech Connect (OSTI)

This study investigated the expression of genes controlling homologous recombination (HR), and non-homologous end-joining (NHEJ) DNA-repair pathways in bovine embryos of different developmental potential. It also evaluated whether bovine embryos can respond to DNA double-strand breaks (DSBs) induced with ultraviolet irradiation by regulating expression of genes involved in HR and NHEJ repair pathways. Embryos with high, intermediate or low developmental competence were selected based on the cleavage time after in vitro insemination and were removed from in vitro culture before (36 h), during (72 h) and after (96 h) the expected period of embryonic genome activation. All studied genes were expressed before, during and after the genome activation period regardless the developmental competence of the embryos. Higher mRNA expression of 53BP1 and RAD52 was found before genome activation in embryos with low developmental competence. Expression of 53BP1, RAD51 and KU70 was downregulated at 72 h and upregulated at 168 h post-insemination in response to DSBs induced by ultraviolet irradiation. In conclusion, important genes controlling HR and NHEJ DNA-repair pathways are expressed in bovine embryos, however genes participating in these pathways are only regulated after the period of embryo genome activation in response to ultraviolet-induced DSBs.

Henrique Barreta, Marcos [Universidade Federal de Santa Catarina, Campus Universitario de Curitibanos, Curitibanos, SC (Brazil) [Universidade Federal de Santa Catarina, Campus Universitario de Curitibanos, Curitibanos, SC (Brazil); Laboratorio de Biotecnologia e Reproducao Animal-BioRep, Universidade Federal de Santa Maria, Santa Maria, RS (Brazil); Garziera Gasperin, Bernardo; Braga Rissi, Vitor; Cesaro, Matheus Pedrotti de [Laboratorio de Biotecnologia e Reproducao Animal-BioRep, Universidade Federal de Santa Maria, Santa Maria, RS (Brazil)] [Laboratorio de Biotecnologia e Reproducao Animal-BioRep, Universidade Federal de Santa Maria, Santa Maria, RS (Brazil); Ferreira, Rogerio [Centro de Educacao Superior do Oeste-Universidade do Estado de Santa Catarina, Chapeco, SC (Brazil)] [Centro de Educacao Superior do Oeste-Universidade do Estado de Santa Catarina, Chapeco, SC (Brazil); Oliveira, Joao Francisco de; Goncalves, Paulo Bayard Dias [Laboratorio de Biotecnologia e Reproducao Animal-BioRep, Universidade Federal de Santa Maria, Santa Maria, RS (Brazil)] [Laboratorio de Biotecnologia e Reproducao Animal-BioRep, Universidade Federal de Santa Maria, Santa Maria, RS (Brazil); Bordignon, Vilceu, E-mail: vilceu.bordignon@mcgill.ca [Department of Animal Science, McGill University, Ste-Anne-De-Bellevue, QC (Canada)] [Department of Animal Science, McGill University, Ste-Anne-De-Bellevue, QC (Canada)

2012-10-01T23:59:59.000Z

327

An evaluation of genotoxicity in human neuronal-type cells subjected to oxidative stress under an extremely low frequency pulsed magnetic field  

Science Journals Connector (OSTI)

Abstract The possible genotoxicity of extremely low frequency magnetic field (ELF-MF) exposure is still a controversial topic. The most of the reported data suggests that it alone does not affect DNA integrity, but several recent reports have suggested that sinusoidal ELF-MF may increase the effect of known genotoxic agents. Only a few studies deal with non sinusoidal ELF-MF, including pulsed magnetic field (PMF), which are produced by several devices. The aim of this study is to investigate whether PMF exposure can interfere with DNA damage and repair in the presence of a genotoxic oxidative agent in neuronal type cells. To this purpose gamma-H2AX foci formation, which is a sensitive marker of DNA double strand breaks (DSB), was investigated at different points of time (1, 24, 48, 72 h) after the H2O2 treatment (300 ?M for 1 h) under PMF exposure (1 mT, 50 Hz) in human neuroblastoma BE(2)C cells. Moreover, cytotoxicity evaluation, by MTT assay and cell cycle analysis, was performed at various points of time after the treatment. Taken together, results suggest that PMF exposure does not interfere with genotoxicity and cytotoxicity induced by oxidative stress.

Gianfranco Giorgi; Mariangela Lecciso; Miriam Capri; Stella Lukas Yani; Angela Virelli; Ferdinando Bersani; Brunella Del Re

2014-01-01T23:59:59.000Z

328

Metallic glass could make your next cell phone harder to break  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Metallic glass could make your next cell phone harder to break Alumni Link: Opportunities, News and Resources for Former Employees Latest Issue:January 2015 All Issues submit...

329

Metallic glass could make your next cell phone harder to break  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

April 2014 Metallic glass could make your next cell phone harder to break Community Connections: Your link to news and opportunities from Los Alamos National Laboratory Latest...

330

Bubbles Help Break Energy Storage Record for Lithium Air-Batteries  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Bubbles Help Break Energy Storage Record for Lithium Air-Batteries Foam-base graphene keeps oxygen flowing in batteries that holds promise for electric vehicles January...

331

Planetary Wave Breaking and Nonlinear Reflection: Seasonal Cycle and Interannual Variability  

E-Print Network [OSTI]

and L. M. Polvani, 2000: Climatology of intrusions into theM. H. Hitchman, 1999: A climatology of Rossby wave breaking

Abatzoglou, John T; Magnusdottir, Gudrun

2006-01-01T23:59:59.000Z

332

Nanotechnology Applications in Self-Assembly and DNA Computing  

E-Print Network [OSTI]

Covalent attachment of synthetic DNA to self-assembledof synthetic oligodeoxyribonucleotides to phi chi 174 DNA:

Akin, Hayri Engin

2011-01-01T23:59:59.000Z

333

When Size Matters: Yttrium Oxide Breaking Down Under Pressure | Advanced  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Breakthrough in Nanocrystals' Growth Breakthrough in Nanocrystals' Growth Next Step to Drought-Resistant Plants? A Boring Material "Stretched" Could Lead to an Electronics Revolution At the Crossroads of Chromosomes Unveiling the Structure of Adenovirus Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed When Size Matters: Yttrium Oxide Breaking Down Under Pressure NOVEMBER 2, 2010 Bookmark and Share Top: Pair distribution function (PDF) of 16 nm-sized Y2O3 at high pressures. Bottom: Lin Wang (left) and Wenge Yang (right) of the Carnegie Institution of Washington shown with the diamond anvil cell and x-ray instrumentation used to probe the PDF of the sample at high applied

334

Breaking Records in Neurological Microradiology | Advanced Photon Source  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Exposing Valence-Bond Model Inadequacies Exposing Valence-Bond Model Inadequacies Plants' Rapid Response System Revealed Rewriting the Organofluorine Playbook Computer-Designed Proteins to Disarm a Variety of Flu Viruses Driving Membrane Curvature Science Highlights Archives: 2013 | 2012 | 2011 | 2010 2009 | 2008 | 2007 | 2006 2005 | 2004 | 2003 | 2002 2001 | 2000 | 1998 | Subscribe to APS Science Highlights rss feed Breaking Records in Neurological Microradiology AUGUST 9, 2012 Bookmark and Share A dense neuron cluster including details of cells in deeper tissue layers. As neuroscientists probe ever deeper into the mysteries of the brain and nervous system, they need ever sharper vision. A group of researchers has developed some exciting new techniques for imaging neuronal and synaptic networks using the hard synchrotron x-rays

335

LANL breaks ground on key sediment control project  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Sediment control project Sediment control project LANL breaks ground on key sediment control project Called "grade-control" structures, the approximately $2 million features are up to eight feet high and made of rocks packed tightly into wire enclosures. November 5, 2009 Los Alamos National Laboratory sits on top of a once-remote mesa in northern New Mexico with the Jemez mountains as a backdrop to research and innovation covering multi-disciplines from bioscience, sustainable energy sources, to plasma physics and new materials. Los Alamos National Laboratory sits on top of a once-remote mesa in northern New Mexico with the Jemez mountains as a backdrop to research and innovation covering multi-disciplines from bioscience, sustainable energy sources, to plasma physics and new materials.

336

Domain Walls and Vortices in Chiral Symmetry Breaking  

E-Print Network [OSTI]

We study domain walls and vortices in chiral symmetry breaking in a QCD-like theory with N flavors in the chiral limit. If the axial anomaly is absent, there exist stable Abelian axial vortices winding around the spontaneously broken U(1)_A symmetry and non-Abelian axial vortices winding around both the U(1)_A and non-Abelian SU(N) chiral symmetries. In the presence of the axial anomaly term, metastable domain walls are present and Abelian axial vortices must be attached by N domain walls, forming domain wall junctions. We show that a domain wall junction decays into N non-Abelian vortices attached by domain walls, implying its metastability. We also show that domain walls decay through the quantum tunneling by creating a hole bounded by a closed non-Abelian vortex.

Minoru Eto; Yuji Hirono; Muneto Nitta

2013-09-18T23:59:59.000Z

337

Embedded defects and symmetry breaking in flipped SU(5)  

Science Journals Connector (OSTI)

We explicitly show the analogy between the symmetry-breaking scheme for the GUT flipped SU(5) with that of the Weinberg-Salam theory of electroweak interactions. This allows us to construct the embedded defect spectrum of the flipped SU(5) theory. We find that the spectrum consists of twelve gauge-equivalent unstable leptoquark strings, which are analogous to W strings in electroweak theory, and another string that is gauge inequivalent to the leptoquark strings which we call the ‘‘V string.’’ The V string is analogous to the Z string of electroweak theory, correspondingly admitting a stable semilocal limit. Using data on the running coupling constants we indicate that in the nonsupersymmetric case V strings can be stable for part of the physically viable parameter space. Cosmological consequences are briefly discussed. © 1995 The American Physical Society.

Anne-Christine Davis and Nathan F. Lepora

1995-12-15T23:59:59.000Z

338

Are There Local Analogs of Lyman Break Galaxies?  

E-Print Network [OSTI]

To make direct comparisons in the rest-far-ultraviolet between LBGs at z~3 and more local star-forming galaxies, we use HST/STIS to image a set of 12 nearby (z<0.05) HII galaxies in the FUV and a set of 14 luminous compact blue galaxies (LCBGs) at moderate redshift (z~0.5) in the NUV, corresponding to the rest-FUV. We then subject both sets of galaxy images and those of LBGs at z~3 to the same morphological and structural analysis. We find many qualitative and quantitative similarities between the rest-FUV characteristics of distant LBGs and of the more nearby starburst samples, including general morphologies, sizes, asymmetries, and concentrations. Along with some kinematic similarities, this implies that nearby HII galaxies and LCBGs may be reasonable local analogs of distant Lyman break galaxies.

James D. Lowenthal; R. Nick Durham; Brian J. Lyons; Matthew A. Bershady; Jesus Gallego; Rafael Guzman; David C. Koo

2005-02-14T23:59:59.000Z

339

Sequence independent amplification of DNA  

DOE Patents [OSTI]

The present invention is a rapid sequence-independent amplification procedure (SIA). Even minute amounts of DNA from various sources can be amplified independent of any sequence requirements of the DNA or any a priori knowledge of any sequence characteristics of the DNA to be amplified. This method allows, for example, the sequence independent amplification of microdissected chromosomal material and the reliable construction of high quality fluorescent in situ hybridization (FISH) probes from YACs or from other sources. These probes can be used to localize YACs on metaphase chromosomes but also--with high efficiency--in interphase nuclei. 25 figs.

Bohlander, S.K.

1998-03-24T23:59:59.000Z

340

Sequence independent amplification of DNA  

DOE Patents [OSTI]

The present invention is a rapid sequence-independent amplification procedure (SIA). Even minute amounts of DNA from various sources can be amplified independent of any sequence requirements of the DNA or any a priori knowledge of any sequence characteristics of the DNA to be amplified. This method allows, for example the sequence independent amplification of microdissected chromosomal material and the reliable construction of high quality fluorescent in situ hybridization (FISH) probes from YACs or from other sources. These probes can be used to localize YACs on metaphase chromosomes but also--with high efficiency--in interphase nuclei.

Bohlander, Stefan K. (Chicago, IL)

1998-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


341

Unnatural nucleotides for DNA sequencing  

E-Print Network [OSTI]

'-dT4XT5 (below). . . 65 4. 4 Attempted incorporation of dXTP by A) Sequenase~ Version 2. 0, B) Klenow, Exonuclease-free and C) DNA Polymerase, Klenow Fragment. . . . . . . , . . . . . . . . . . . . . . . . . . , . . . . . . 68 4. 5 Attempted... detection of small amounts of DNA present in DNA sequencing gels. Second, tMferent fluorophores are used for each of the base specific reactions. Fluorophores (Figure 1. 4) are covalently attached to the 5' end CHs CHs 0 0 0 HsC CHs 0 ~NH 0 I NH CHs...

Jacutin, Swanee E

2012-06-07T23:59:59.000Z

342

DNA UPTAKE BY TRANSFORMABLE BACTERIA  

SciTech Connect (OSTI)

The various processes of DNA uptake by cells can be categorized as: viral DNA entry, conjugation, or transformation. Within each category, a variety of mechanisms have been found. However, considerable similarities occur among the different mechanisms of conjugation and, especially, transformation. All of these natural mechanisms of DNA transfer are quite elaborate and involve multiple protein components, as the case may be, of the virus, the donor cell, and the recipient cell. The mechanisms of viral infection and conjugation will be discussed mainly with respect to their relevance to transformation.

LACKS,S.A.

1999-09-07T23:59:59.000Z

343

Normalized cDNA libraries  

DOE Patents [OSTI]

This invention provides a method to normalize a directional cDNA library constructed in a vector that allows propagation in single-stranded circle form comprising: (a) propagating the directional cDNA library in single-stranded circles; (b) generating fragments complementary to the 3' noncoding sequence of the single-stranded circles in the library to produce partial duplexes; (c) purifying the partial duplexes; (d) melting and reassociating the purified partial duplexes to moderate Cot; and (e) purifying the unassociated single-stranded circles, thereby generating a normalized cDNA library.

Soares, Marcelo B. (New York, NY); Efstratiadis, Argiris (Englewood, NJ)

1997-01-01T23:59:59.000Z

344

Normalized cDNA libraries  

DOE Patents [OSTI]

This invention provides a method to normalize a directional cDNA library constructed in a vector that allows propagation in single-stranded circle form comprising: (a) propagating the directional cDNA library in single-stranded circles; (b) generating fragments complementary to the 3{prime} noncoding sequence of the single-stranded circles in the library to produce partial duplexes; (c) purifying the partial duplexes; (d) melting and reassociating the purified partial duplexes to moderate Cot; and (e) purifying the unassociated single-stranded circles, thereby generating a normalized cDNA library. 4 figs.

Soares, M.B.; Efstratiadis, A.

1997-06-10T23:59:59.000Z

345

Modeling DNA Shuffling Fengzhu Sun  

E-Print Network [OSTI]

Modeling DNA Shuffling Fengzhu Sun 1Department of Genetics Emory University School of Medicine property are selected. Irvine et al. (1991) and Sun et al. (1996) studied in vitro evolution not involving

Sun, Fengzhu - Sun, Fengzhu

346

Nanoscale Molecular Transport by Synthetic DNA Machines  

E-Print Network [OSTI]

Nanoscale Molecular Transport by Synthetic DNA Machines Jong-Shik Shin1 and Niles A. Pierce1,2 1 a processive bipedal DNA walker. Powered by externally controlled DNA fuel strands, the walker locomotes with a 5 nm stride by advancing the trailing foot to the lead at each step. On a periodic DNA track

Pierce, Niles A.

347

Designs of Autonomous Unidirectional Walking DNA Devices  

E-Print Network [OSTI]

a route programmably embedded in the under- lying nanostructure ­ existing synthetic DNA mechanical

Reif, John H.

348

Ancient DNA: the first three decades  

Science Journals Connector (OSTI)

...Romanov family by DNA analysis. Nat. Genet. 6...Tyler-Smith, C. 1998 Reliability of DNA-based sex tests...W. 2000 Molecular analysis of Neanderthal DNA from...and mitochondrial DNA analysis of a 2000-year-old...high-density picolitre reactors. Nature 437, 376-380...

2015-01-01T23:59:59.000Z

349

Molecular Computing with DNA Self-Assembly  

E-Print Network [OSTI]

Molecular Computing with DNA Self-Assembly Urmi Majumder #12;Self-Assembly in Nature #12;Key to DNA for Molecular Computing with DNA Self-Assembly Compact: Small library of assembly primitives Complex: Capable in Tiling Assembly: vitroation tural DNA self-assembly has powerful echanisms for error correction

Reif, John H.

350

Covalent Structure of the DNA-DNA Interstrand Cross-Link Formed by Reductively Activated FR66979 in Synthetic DNA Duplexes  

Science Journals Connector (OSTI)

Covalent Structure of the DNA-DNA Interstrand Cross-Link Formed by Reductively Activated FR66979 in Synthetic DNA Duplexes ...

Huifang Huang; Tom K. Pratum; Paul B. Hopkins

1994-04-01T23:59:59.000Z

351

Radiation-induced electron migration along DNA  

SciTech Connect (OSTI)

Radiation-induced electron migration along DNA is a mechanism by which randomly produced stochastic energy deposition events can lead to nonrandom types of damage along DNA manifested distal to the sites of the initial energy deposition. Electron migration along DNA is significantly influenced by the DNA base sequence and DNA conformation. Migration along 7 base pairs in oligonucleotides containing guanine bases was observed for oligonucleotides irradiated in solution which compares to average migration distances of 6 to 10 bases for Escherichia coli DNA irradiated in solution and 5.5 base pairs for Escherichia coli DNA irradiated in cells. Evidence also suggests that electron migration can occur preferentially in the 5{prime} to 3{prime} direction along DNA. Our continued efforts will provide information regarding the contribution of electron transfer along DNA to formation of locally multiply damaged sites created in DNA by exposure to ionizing radiation.

Fuciarelli, A.F.; Sisk, E.C.; Miller, J.H. [Pacific Northwest Lab., Richland, WA (United States); Zimbrick, J.D. [National Research Council, Washington, DC (United States)

1994-04-01T23:59:59.000Z

352

Meta-DNA: synthetic biology via DNA nanostructures and hybridization reactions  

Science Journals Connector (OSTI)

...articles 1004 181 131 18 Meta-DNA: synthetic biology via DNA nanostructures...protocols for its manipulation. Synthetic DNA is also cheaply and readily available...specific to mDNA and also occurs in synthetic DNA synthesis. One of the key technological...

2012-01-01T23:59:59.000Z

353

CONSULTATION RESPONSE The Forensic Use of DNA and the National DNA Database  

E-Print Network [OSTI]

CONSULTATION RESPONSE The Forensic Use of DNA and the National DNA Database Wellcome Trust response on the important topic of the forensic use of DNA and the National DNA Database (NDNAD). Given the Trust Assembly; "Forensic DNA Databasing: A European perspective" - a biomedical ethics grant to Professor Robin

Rambaut, Andrew

354

Design Considerations for Monopile Founded Offshore Wind Turbines Subject to Breaking Waves  

E-Print Network [OSTI]

DESIGN CONSIDERATIONS FOR MONOPILE FOUNDED OFFSHORE WIND TURBINES SUBJECT TO BREAKING WAVES A Thesis by GARRETT REESE OWENS Submitted to the Office of Graduate Studies of Texas A&M University in partial fulfillment... Farms ...... 4 Figure 2 Overview of Offshore Wind Turbine Terminology................................. 7 Figure 3 Overturning Moment as a Function of Water Depth ............................... 10 Figure 4 Types of Breaking Waves...

Owens, Garrett Reese 1987-

2012-11-26T23:59:59.000Z

355

Formation of beads-on-a-string structures during break-up of viscoelastic filaments  

E-Print Network [OSTI]

Break-up of viscoelastic filaments is pervasive in both nature and technology. If a filament is formed by placing a drop of saliva between a thumb and forefinger and is stretched, the filament’s morphology close to break-up ...

Bhat, Pardeep P.

356

Symmetry Breaking in Graphene Gregory S. Boebinger, National High Magnetic Field Laboratory  

E-Print Network [OSTI]

Symmetry Breaking in Graphene Gregory S. Boebinger, National High Magnetic Field Laboratory DMR. In this experiment, Landau levels in graphene were used to study the breaking of SU(4) symmetry--a higher dimensional states by their spin polarization. It was found that graphene turns into either a spin ferromagnet

Weston, Ken

357

Hydrogen bond breaking probed with multidimensional stimulated vibrational echo correlation spectroscopy  

E-Print Network [OSTI]

Hydrogen bond breaking probed with multidimensional stimulated vibrational echo correlation September 2003 Hydrogen bond population dynamics are extricated with exceptional detail using ultrafast ( 50 of methanol­OD oligomers in CCl4 . Hydrogen bond breaking makes it possible to acquire data for times much

Fayer, Michael D.

358

Giving up Twitter for Lent: how and why we take breaks from social media  

Science Journals Connector (OSTI)

Social media use is widespread, but many people worry about overuse. This paper explores how and why people take breaks from social media. Using a mixed methods approach, we pair data from users who tweeted about giving up Twitter for Lent with an interview ... Keywords: Twitter, breaks, internet, media refusal, self-control, social media, willpower

Sarita Yardi Schoenebeck

2014-04-01T23:59:59.000Z

359

On Wave Breaking and the Equilibrium Spectrum of Wind-Generated Waves  

Science Journals Connector (OSTI)

...Equilibrium Spectrum of Wind-Generated Waves M...is made of the loss of energy by wave breaking in a...g the proportion of energy lost per mean wave cycle...equilibrium state the loss of energy by breaking is comparable to that supplied by the wind, one can estimate the...

1969-01-01T23:59:59.000Z

360

EXPERIMENTAL VALIDATION OF A COUPLED BEM-NAVIER-STOKES MODEL FOR SOLITARY WAVE SHOALING AND BREAKING  

E-Print Network [OSTI]

applications are considered. The first one is the case of the breaking of a solitary wave over a step, which). INTRODUCTION Breaking waves on beaches and over ocean bottom discontinuities, constitute one of the most. In particular, due to the increasing power of mod- ern computers, direct Computational Fluid Dynamics (CFD

Grilli, Stéphan T.

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


361

Cellular responses to environmental DNA damage  

SciTech Connect (OSTI)

This volume contains the proceedings of the conference entitled Cellular Responses to Environmental DNA Damage held in Banff,Alberta December 1--6, 1991. The conference addresses various aspects of DNA repair in sessions titled DNA repair; Basic Mechanisms; Lesions; Systems; Inducible Responses; Mutagenesis; Human Population Response Heterogeneity; Intragenomic DNA Repair Heterogeneity; DNA Repair Gene Cloning; Aging; Human Genetic Disease; and Carcinogenesis. Individual papers are represented as abstracts of about one page in length.

Not Available

1994-08-01T23:59:59.000Z

362

Photo of the Week: Record-Breaking Solar Cells | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Photo of the Week: Record-Breaking Solar Cells Photo of the Week: Record-Breaking Solar Cells Photo of the Week: Record-Breaking Solar Cells December 7, 2012 - 2:27pm Addthis Solar Junction, in partnership with NREL, has developed solar cells that reach a record-breaking 44 percent efficiency -- meaning that more than 40 percent of the sunlight the solar cells are exposed to is converted into electrical energy. In this photo, an operator inspects a photolithography tool used to manufacture these solar cells. | Photo by Daniel Derkacs/SolarJunction. Solar Junction, in partnership with NREL, has developed solar cells that reach a record-breaking 44 percent efficiency -- meaning that more than 40 percent of the sunlight the solar cells are exposed to is converted into electrical energy. In this photo, an operator inspects a photolithography

363

Photo of the Week: Record-Breaking Solar Cells | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Record-Breaking Solar Cells Record-Breaking Solar Cells Photo of the Week: Record-Breaking Solar Cells December 7, 2012 - 2:27pm Addthis Solar Junction, in partnership with NREL, has developed solar cells that reach a record-breaking 44 percent efficiency -- meaning that more than 40 percent of the sunlight the solar cells are exposed to is converted into electrical energy. In this photo, an operator inspects a photolithography tool used to manufacture these solar cells. | Photo by Daniel Derkacs/SolarJunction. Solar Junction, in partnership with NREL, has developed solar cells that reach a record-breaking 44 percent efficiency -- meaning that more than 40 percent of the sunlight the solar cells are exposed to is converted into electrical energy. In this photo, an operator inspects a photolithography

364

Parg deficiency confers radio-sensitization through enhanced cell death in mouse ES cells exposed to various forms of ionizing radiation  

SciTech Connect (OSTI)

Highlights: •Parg{sup ?/?} ES cells were more sensitive to ?-irradiation than Parp-1{sup ?/?} ES cells. •Parg{sup ?/?} cells were more sensitive to carbon-ion irradiation than Parp-1{sup ?/?} cells. •Parg{sup ?/?} cells showed defects in DSB repair after carbon-ion irradiation. •PAR accumulation was enhanced after carbon-ion irradiation compared to ?-irradiation. -- Abstract: Poly(ADP-ribose) glycohydrolase (Parg) is the main enzyme involved in poly(ADP-ribose) degradation. Here, the effects of Parg deficiency on sensitivity to low and high linear-energy-transfer (LET) radiation were investigated in mouse embryonic stem (ES) cells. Mouse Parg{sup ?/?} and poly(ADP-ribose) polymerase-1 deficient (Parp-1{sup ?/?}) ES cells were used and responses to low and high LET radiation were assessed by clonogenic survival and biochemical and biological analysis methods. Parg{sup ?/?} cells were more sensitive to ?-irradiation than Parp-1{sup ?/?} cells. Transient accumulation of poly(ADP-ribose) was enhanced in Parg{sup ?/?} cells. Augmented levels of phosphorylated H2AX (?-H2AX) from early phase were observed in Parg{sup ?/?} ES cells. The induction level of p53 phophorylation at ser18 was similar in wild-type and Parp-1{sup ?/?} cells and apoptotic cell death process was mainly observed in the both genotypes. These results suggested that the enhanced sensitivity of Parg{sup ?/?} ES cells to ?-irradiation involved defective repair of DNA double strand breaks. The effects of Parg and Parp-1 deficiency on the ES cell response to carbon-ion irradiation (LET13 and 70 keV/?m) and Fe-ion irradiation (200 keV/?m) were also examined. Parg{sup ?/?} cells were more sensitive to LET 70 keV/?m carbon-ion irradiation than Parp-1{sup ?/?} cells. Enhanced apoptotic cell death also accompanied augmented levels of ?-H2AX in a biphasic manner peaked at 1 and 24 h. The induction level of p53 phophorylation at ser18 was not different between wild-type and Parg{sup ?/?} cells. The augmented level of poly(ADP-ribose) accumulation was noted after carbon-ion irradiation compared to ?-irradiation even in the wild-type cells. An enhanced poly(ADP-ribose) accumulation was further observed in Parg{sup ?/?} cells. Both Parg{sup ?/?} cells and Parp-1{sup ?/?} cells did not show sensitization to Fe-ion irradiation. Parg deficiency sensitizes mouse ES cells to a wide therapeutic range of LET radiation through the effects on DNA double strand break repair responses and enhanced cell death.

Shirai, Hidenori; Fujimori, Hiroaki [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan)] [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Gunji, Akemi [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan)] [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Maeda, Daisuke [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan) [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); ADP-Ribosylation in Oncology Project, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Hirai, Takahisa [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan) [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Department of Radiation Oncology, Juntendo University Faculty of Medicine, 2-1-1 Hongo, Bunkyo-ku, Tokyo 113-8421 (Japan); Poetsch, Anna R. [ADP-Ribosylation in Oncology Project, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan)] [ADP-Ribosylation in Oncology Project, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Harada, Hiromi [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan)] [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Yoshida, Tomoko [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan) [Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Kyoritsu College of Pharmacy, 1-5-30 Shibakoen, Minatoku, Tokyo 105-8512 (Japan); Sasai, Keisuke [Department of Radiation Oncology, Juntendo University Faculty of Medicine, 2-1-1 Hongo, Bunkyo-ku, Tokyo 113-8421 (Japan)] [Department of Radiation Oncology, Juntendo University Faculty of Medicine, 2-1-1 Hongo, Bunkyo-ku, Tokyo 113-8421 (Japan); Okayasu, Ryuichi [International Open Laboratory, National Institute of Radiological Science, 4-9-1 Anagawa, Inage, Chiba 263-8555 (Japan)] [International Open Laboratory, National Institute of Radiological Science, 4-9-1 Anagawa, Inage, Chiba 263-8555 (Japan); Masutani, Mitsuko, E-mail: mmasutan@ncc.go.jp [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan) [Division of Genome Stability Research, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); Biochemistry Division, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan); ADP-Ribosylation in Oncology Project, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045 (Japan)

2013-05-24T23:59:59.000Z

365

The mechanism of human tyrosyl-DNA phosphodiesterase 1 in the cleavage of AP site and its synthetic analogs  

Science Journals Connector (OSTI)

Abstract The mechanism of hydrolysis of the apurinic/apyrimidinic (AP) site and its synthetic analogs by using tyrosyl-DNA phosphodiesterase 1 (Tdp1) was analyzed. Tdp1 catalyzes the cleavage of AP site and the synthetic analog of the AP site, 3-hydroxy-2(hydroxymethyl)-tetrahydrofuran (THF), in DNA by hydrolysis of the phosphodiester bond between the substituent and 5? adjacent phosphate. The product of Tdp1 cleavage in the case of the AP site is unstable and is hydrolyzed with the formation of 3?- and 5?-margin phosphates. The following repair demands the ordered action of polynucleotide kinase phosphorylase, with XRCC1, DNA polymerase ?, and DNA ligase. In the case of THF, Tdp1 generates break with the 5?-THF and the 3?-phosphate termini. Tdp1 is also able to effectively cleave non-nucleotide insertions in DNA, decanediol and diethyleneglycol moieties by the same mechanism as in the case of THF cleavage. The efficiency of Tdp1 catalyzed hydrolysis of AP-site analog correlates with the DNA helix distortion induced by the substituent. The following repair of 5?-THF and other AP-site analogs can be processed by the long-patch base excision repair pathway.

Natalia A. Lebedeva; Nadejda I. Rechkunova; Alexander A. Ishchenko; Murat Saparbaev; Olga I. Lavrik

2013-01-01T23:59:59.000Z

366

Symmetry Breaking, Unification, and Theories Beyond the Standard Model  

SciTech Connect (OSTI)

A model was constructed in which the supersymmetric fine-tuning problem is solved without extending the Higgs sector at the weak scale. We have demonstrated that the model can avoid all the phenomenological constraints, while avoiding excessive fine-tuning. We have also studied implications of the model on dark matter physics and collider physics. I have proposed in an extremely simple construction for models of gauge mediation. We found that the {mu} problem can be simply and elegantly solved in a class of models where the Higgs fields couple directly to the supersymmetry breaking sector. We proposed a new way of addressing the flavor problem of supersymmetric theories. We have proposed a new framework of constructing theories of grand unification. We constructed a simple and elegant model of dark matter which explains excess flux of electrons/positrons. We constructed a model of dark energy in which evolving quintessence-type dark energy is naturally obtained. We studied if we can find evidence of the multiverse.

Nomura, Yasunori

2009-07-31T23:59:59.000Z

367

Treatment methods for breaking certain oil and water emulsions  

DOE Patents [OSTI]

Disclosed are treatment methods for breaking emulsions of petroleum oil and salt water, fatty oil and water, and those resulting from liquefication of organic material. The emulsions are broken by heating to a predetermined temperature at or above about 200.degree. C. and pressurizing to a predetermined pressure above the vapor pressure of water at the predetermined temperature to produce a heated and pressurized fluid. The heated and pressurized fluid is contained in a single vessel at the predetermined temperature and pressure for a predetermined period of time to effectively separate the emulsion into substantially distinct first and second phases, the first phase comprising primarily the petroleum oil, the second phase comprising primarily the water. The first and second phases are separately withdrawn from the vessel at a withdraw temperature between about 200.degree. C. and 374.degree. C. and a withdraw pressure above the vapor pressure of water at the withdraw temperature. Where solids are present in the certain emulsions, the above described treatment may also effectively separate the certain emulsion into a substantially distinct third phase comprising primarily the solids.

Sealock, Jr., L. John (W. Richland, WA); Baker, Eddie G. (Richland, WA); Elliott, Douglas C. (Richland, WA)

1992-01-01T23:59:59.000Z

368

Spontaneous symmetry breaking in Schroedinger lattices with two nonlinear sites  

SciTech Connect (OSTI)

We introduce discrete systems in the form of straight (infinite) and ring-shaped chains, with two symmetrically placed nonlinear sites. The systems can be implemented in nonlinear optics (as waveguiding arrays) and Bose-Einstein condensates (by means of an optical lattice). A full set of exact analytical solutions for symmetric, asymmetric, and antisymmetric localized modes is found, and their stability is investigated in a numerical form. The symmetry-breaking bifurcation, through which the asymmetric modes emerge from the symmetric ones, is found to be of the subcritical type. It is transformed into a supercritical bifurcation if the nonlinearity is localized in relatively broad domains around two central sites, and also in the ring of a small size, i.e., in effectively nonlocal settings. The family of antisymmetric modes does not undergo bifurcations and features both stable and unstable portions. The evolution of unstable localized modes is investigated by means of direct simulations. In particular, unstable asymmetric states, which exist in the case of the subcritical bifurcation, give rise to breathers oscillating between the nonlinear sites, thus restoring an effective dynamical symmetry between them.

Brazhnyi, Valeriy A.; Malomed, Boris A. [Centro de Fisica do Porto, Faculdade de Ciencias, Universidade do Porto, R. Campo Alegre 687, Porto 4169-007 (Portugal); ICFO-Institut de Ciencies Fotoniques, Universitat Politecnica de Catalunya, Mediterranean Technology Park, 08860 Castelldefels (Barcelona) (Spain) and Department of Physical Electronics, School of Electrical Engineering, Faculty of Engineering, Tel Aviv University, Tel Aviv 69978 (Israel)

2011-05-15T23:59:59.000Z

369

Natural cold baryogenesis from strongly interacting electroweak symmetry breaking  

SciTech Connect (OSTI)

The mechanism of ''cold electroweak baryogenesis'' has been so far unpopular because its proposal has relied on the ad-hoc assumption of a period of hybrid inflation at the electroweak scale with the Higgs acting as the waterfall field. We argue here that cold baryogenesis can be naturally realized without the need to introduce any slow-roll potential. Our point is that composite Higgs models where electroweak symmetry breaking arises via a strongly first-order phase transition provide a well-motivated framework for cold baryogenesis. In this case, reheating proceeds by bubble collisions and we argue that this can induce changes in Chern-Simons number, which in the presence of new sources of CP violation commonly lead to baryogenesis. We illustrate this mechanism using as a source of CP violation an effective dimension-six operator which is free from EDM constraints, another advantage of cold baryogenesis compared to the standard theory of electroweak baryogenesis. Our results are general as they do not rely on any particular UV completion but only on a stage of supercooling ended by a first-order phase transition in the evolution of the universe, which can be natural if there is nearly conformal dynamics at the TeV scale. Besides, baryon-number violation originates from the Standard Model only.

Konstandin, Thomas; Servant, Géraldine, E-mail: tkonstan@cern.ch, E-mail: geraldine.servant@cern.ch [CERN Physics Department, Theory Division, CH-1211 Geneva 23 (Switzerland)

2011-07-01T23:59:59.000Z

370

Physical Naturalness and Dynamical Breaking of Classical Scale Invariance  

E-Print Network [OSTI]

We propose a model of a confining dark sector, dark technicolor, that communicates with the Standard Model through the Higgs portal. In this model electroweak symmetry breaking and dark matter share a common origin, and the electroweak scale is generated dynamically. Our motivation to suggest this model is the absense of evidence for new physics from recent LHC data. Although the conclusion is far from certain at this point, this lack of evidence may suggest that no mechanism exists at the electroweak scale to stabilise the Higgs mass against radiative corrections from UV physics. The usual reaction to this puzzling situation is to conclude that the stabilising new physics is either hidden from us by accident, or that it appears at energies that are currently inaccessible, such that nature is indeed fine-tuned. In order to re-examine the arguments that have lead to this dichotomy, we review the concept of naturalness in effective field theories, discussing in particular the role of quadratic divergences in relation to different energy scales. This leads us to suggest classical scale invariance as a guidline for model building, implying that explicit mass scales are absent in the underlying theory.

Matti Heikinheimo; Antonio Racioppi; Martti Raidal; Christian Spethmann; Kimmo Tuominen

2014-05-05T23:59:59.000Z

371

Automated inspection of surface breaking cracks using GMR sensor arrays  

SciTech Connect (OSTI)

We present a prototype for automated magnetic stray field testing of ferromagnetic roller bearings. For this purpose NDE-adapted GMR sensor arrays (giant magneto resistance) are used for the detection of surface breaking cracks. The sensors are miniaturized down to the lower ?m-regime to achieve adequate spatial resolution. In doing so, sensor arrays with up to 48 elements are used to inspect the bearing surface within a few seconds only. In contrast to magnetic particle inspection (MPI), where the global magnetization requires a further inspection step and succeeding demagnetization, the presented prototype only locally magnetize the surface area in the vicinity of the GMR Sensors. For the local magnetization, the applied sub-surface magnetic field was simulated and proofed for detecting flaws with a depth of a few 10 ?m. By multiplexing the sensor array with an adapted read out electronics we quasi simultaneously detect the normal field component of about 100?m above the surface. The detection of artificial notches with a depth of 40 ?m and more could be resolved with a SNR better than 20 dB. The presented testing facility is fast and provides a step towards automated testing of safety relevant steel components.

Pelkner, Matthias; Reimund, Verena; Erthner, Thomas; Panke, Nicolai; Kreutzbruck, Marc [BAM Federal Institute for Material Research and Testing, Unter den Eichen 87, 12205 Berlin (Germany)

2014-02-18T23:59:59.000Z

372

Long?term variations of ice breaking noise in Antarctica  

Science Journals Connector (OSTI)

Numerous low frequency transient signals arriving from Antarctica have been detected in five?year sea noise recordings in 2002?2006 at the hydroacoustic listening station deployed off Cape Leeuwin in Western Australia as part of the International Monitoring System of the Comprehensive Nuclear?Test?Ban Treaty. The majority of these signals consist of a single arrival of mode 1 which dominates the higher modes and undergoes strong frequency dispersion due to long?range propagation in the polar ocean environment. These signals are believed to be emitted primarily by ice rifting and breaking events on the Antarctic shelf. Several regions along the Antarctic coast associated with certain glaciers and ice tongues were found to persistently be much more active in generatingicenoise than other parts of the Antarctic shelf. An analysis of long?term changes in the frequency of occurrence of ice events showed noticeable seasonal cycles but did not reveal any significant interannual variations against the background of short?term fluctuations. Some of the ice events detected at the Cape Leeuwin station were also identified in sea noise recordings made on autonomous acoustic loggers deployed on the Antarctic shelf which allowed us to investigate characteristics of the acoustic signals from ice events near their origins.

Alexander Gavrilov; Binghui Li

2008-01-01T23:59:59.000Z

373

Scales of Fermion Mass Generation and Electroweak Symmetry Breaking  

E-Print Network [OSTI]

The scale of mass generation for fermions (including neutrinos) and the scale for electroweak symmetry breaking (EWSB) can be bounded from above by the unitarity of scattering involving longitudinal weak gauge bosons or their corresponding would-be Goldstone bosons. Including the exact n-body phase space we analyze the 2 --> n ($n \\geq 2$) processes for the fermion-(anti)fermion scattering into multiple gauge boson final states. Contrary to naive energy power counting, we demonstrate that as $n$ becomes large, the competition between an increasing energy factor and a phase-space suppression leads to a {\\it strong new upper bound} on the scale of fermion mass generation at a finite value $n=n_s$, which is {\\it independent of the EWSB scale,} $v = (\\sqrt{2}G_F)^{-1/2}$. For quarks, leptons and Majorana neutrinos, the strongest 2 --> n limits range from about 3TeV to 130-170TeV (with $2\\lesssim n_s \\lesssim 24$), depending on the measured fermion masses. Strikingly, given the tiny neutrino masses as constrained by the neutrino oscillations, neutrinoless double-beta decays and astrophysical observations, the unitarity violation of $\

Duane A. Dicus; Hong-Jian He

2005-06-11T23:59:59.000Z

374

Co-targeting Deoxyribonucleic Acid–Dependent Protein Kinase and Poly(Adenosine Diphosphate-Ribose) Polymerase-1 Promotes Accelerated Senescence of Irradiated Cancer Cells  

SciTech Connect (OSTI)

Purpose: To examine the effects of combined blockade of DNA-dependent protein kinase (DNA-PK) and poly(adenosine diphosphate-ribose) polymerase-1 (PARP-1) on accelerated senescence in irradiated H460 and A549 non-small cell lung cancer cells. Methods and Materials: The effects of KU5788 and AG014699 (inhibitors of DNA-PK and PARP-1, respectively) on clonogenic survival, DNA double-strand breaks (DSBs), apoptosis, mitotic catastrophe, and accelerated senescence in irradiated cells were examined in vitro. For in vivo experiments, H460 xenografts established in athymic nude mice were treated with BEZ235 (a DNA-PK, ATM, and phosphatidylinositol 3-kinase/mammalian target of rapamycin inhibitor) and AG014699 to determine effects on proliferation, DNA DSBs, and accelerated senescence after radiation. Results: Compared with either inhibitor alone, combination treatment with KU57788 and AG014699 reduced postradiation clonogenic survival and significantly increased persistence of Gamma-H2AX (?H2AX) foci in irradiated H460 and A549 cells. Notably, these effects coincided with the induction of accelerated senescence in irradiated cells as reflected by positive ?-galactosidase staining, G2-M cell-cycle arrest, enlarged and flattened cellular morphology, increased p21 expression, and senescence-associated cytokine secretion. In irradiated H460 xenografts, concurrent therapy with BEZ235 and AG014699 resulted in sustained Gamma-H2AX (?H2AX) staining and prominent ?-galactosidase activity. Conclusion: Combined DNA-PK and PARP-1 blockade increased tumor cell radiosensitivity and enhanced the prosenescent properties of ionizing radiation in vitro and in vivo. These data provide a rationale for further preclinical and clinical testing of this therapeutic combination.

Azad, Arun, E-mail: arun.azad@bccancer.bc.ca [Division of Cancer Research, Peter MacCallum Cancer Centre, East Melbourne, Victoria (Australia); Department of Pathology, St. Vincent's Hospital, University of Melbourne, Parkville, Victoria (Australia); Bukczynska, Patricia; Jackson, Susan [Division of Cancer Research, Peter MacCallum Cancer Centre, East Melbourne, Victoria (Australia); Haput, Ygal; Cullinane, Carleen [Division of Cancer Research, Peter MacCallum Cancer Centre, East Melbourne, Victoria (Australia); Sir Peter MacCallum Department of Oncology, University of Melbourne, Parkville, Victoria (Australia); McArthur, Grant A.; Solomon, Benjamin [Division of Cancer Research, Peter MacCallum Cancer Centre, East Melbourne, Victoria (Australia); Division of Cancer Medicine, Peter MacCallum Cancer Centre, East Melbourne, Victoria (Australia); Department of Medicine, St. Vincent's Hospital, University of Melbourne, Parkville, Victoria (Australia); Sir Peter MacCallum Department of Oncology, University of Melbourne, Parkville, Victoria (Australia)

2014-02-01T23:59:59.000Z

375

Mass Spectrometric Study of Genetic and Epigenetic DNA Modifications  

E-Print Network [OSTI]

of cytosine in synthetic duplex DNA. Moreover, the level ofmethylation in synthetic duplex DNA. The underlined “C”of cytosine in synthetic duplex DNA. Moreover, the global

Wang, Hongxia

2010-01-01T23:59:59.000Z

376

Models for Achromatic Light-Curve Breaks in GRB Afterglows: Jets, Structured Outflows, and Energy Injection  

E-Print Network [OSTI]

The steepening (break) of the power-law fall-off observed in the optical emission of some GRB afterglows at epoch ~1 day is often attributed to a collimated outflow (jet), undergoing lateral spreading. Wider opening GRB ejecta with a non-uniform energy angular distribution (structured outflows) or the cessation of energy injection in the afterglow can also yield light-curve breaks. We determine the optical and X-ray light-curve decay indices and spectral energy distribution slopes for 10 GRB afterglows with optical light-curve breaks (980519, 990123, 990510, 991216, 000301, 000926, 010222, 011211, 020813, 030226), and use these properties to test the above models for light-curve steepening. It is found that the optical breaks of six of these afterglows can be accommodated by either energy injection or by structured outflows. In the refreshed shock model, a wind-like stratification of the circumburst medium (as expected for massive stars as GRB progenitors) is slightly favoured. A spreading jet interacting with a homogeneous circumburst medium is required by the afterglows 990510, 000301, 011211, and 030226. The optical pre- and post-break decays of these four afterglows are incompatible with a wind-like medium. The current sample of 10 afterglows with breaks suggests that the distribution of the break magnitude (defined as the increase of the afterglow decay exponent) is bimodal, with a gap at 1. If true, this bimodality favours the structured outflow model, while the gap location indicates a homogeneous circumburst environment.

A. Panaitescu

2005-06-23T23:59:59.000Z

377

DNA chips --Integrated Chemical Circuits for DNADiagnosis and DNA computers  

E-Print Network [OSTI]

. Their needs are i nc reasing with the rapid progress of the genome projects. DNA chips will also provide basic about 6,000 genes. In 2002­2005, sequencing of the whole human genome w i l l be finished. There are about 100,000 genes in the human genome. These efforts are about to open a new age where everything

Hagiya, Masami

378

Energy Blog | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

April 4, 2012 April 4, 2012 The National Renewable Energy Lab's (NREL) utility rate database is a great resource for developers entering the Apps for Energy competition. | Map courtesy of NREL. Developer Resources for Apps for Energy Are you interested in participating in the Apps for Energy competition? Be sure to check out this list of resources that can help developers create energy apps. April 3, 2012 The DNA replication origin recognition complex (ORC) is a six-protein machine with a slightly twisted half-ring structure (yellow). ORC is proposed to wrap around and bend approximately 70 base pairs of double stranded DNA (red and blue). When a replication initiator Cdc6 (green) joins ORC, the partial ring is now complete and ready to load another protein onto the DNA. This last protein (not shown) is the enzyme that unwinds the double stranded DNA so each strand can be replicated. | Illustration courtesy of Brookhaven Lab.

379

Energy Blog | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

4, 2012 4, 2012 The National Renewable Energy Lab's (NREL) utility rate database is a great resource for developers entering the Apps for Energy competition. | Map courtesy of NREL. Developer Resources for Apps for Energy Are you interested in participating in the Apps for Energy competition? Be sure to check out this list of resources that can help developers create energy apps. April 3, 2012 The DNA replication origin recognition complex (ORC) is a six-protein machine with a slightly twisted half-ring structure (yellow). ORC is proposed to wrap around and bend approximately 70 base pairs of double stranded DNA (red and blue). When a replication initiator Cdc6 (green) joins ORC, the partial ring is now complete and ready to load another protein onto the DNA. This last protein (not shown) is the enzyme that unwinds the double stranded DNA so each strand can be replicated. | Illustration courtesy of Brookhaven Lab.

380

The assessment of DNA-synthetic activity  

Science Journals Connector (OSTI)

A method is described by which a numerical value can be assigned to the amount of DNA-synthesis shown graphically by population-histograms obtained ... index appeared to give a reasonable measure of DNA-synthetic

L. A. Coulton; B. Henderson; J. Chayen

1981-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


381

Fralin Life Science Institute DNA Biotechnology Kit  

E-Print Network [OSTI]

Fralin Life Science Institute DNA Biotechnology Kit INFORMATION MANUAL Kristi DeCourcy & Erin Dolan ..................................................................................................... 3 DNA Biotechnology Kit contents), in partnership with the Virginia Biotechnology Association (VaBIO) and the Virginia Manufacturers Association

Virginia Tech

382

A DNA tweezer-actuated enzyme nanoreactor  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

A DNA tweezer-actuated enzyme nanoreactor Authors: Liu, M., Fu, J., Hejesen, C., Yang, Y., Woodbury, N.W., Gothelf, K., Liu, Y., and Yan, H. Title: A DNA tweezer-actuated enzyme...

383

DNA Concentration By UV Spectrophotometry Measure Absorption  

E-Print Network [OSTI]

DNA Concentration By UV Spectrophotometry Measure Absorption: 1. Dilute DNA to 0.5 to 50 µg 2. Measure absorption at 260 nm (A260). Start by zeroing instrument with TE buffer or dH2O alone

Aris, John P.

384

Towards Privacy Preserving of Forensic DNA Databases  

E-Print Network [OSTI]

Protecting privacy of individuals is critical for forensic genetics. In a kinship/identity testing, related DNA profiles between user's query and the DNA database need to be extracted. However, unrelated profiles cannot be revealed to each other...

Liu, Sanmin

2012-02-14T23:59:59.000Z

385

Chromosome specific repetitive DNA sequences  

DOE Patents [OSTI]

A method is provided for determining specific nucleotide sequences useful in forming a probe which can identify specific chromosomes, preferably through in situ hybridization within the cell itself. In one embodiment, chromosome preferential nucleotide sequences are first determined from a library of recombinant DNA clones having families of repetitive sequences. Library clones are identified with a low homology with a sequence of repetitive DNA families to which the first clones respectively belong and variant sequences are then identified by selecting clones having a pattern of hybridization with genomic DNA dissimilar to the hybridization pattern shown by the respective families. In another embodiment, variant sequences are selected from a sequence of a known repetitive DNA family. The selected variant sequence is classified as chromosome specific, chromosome preferential, or chromosome nonspecific. Sequences which are classified as chromosome preferential are further sequenced and regions are identified having a low homology with other regions of the chromosome preferential sequence or with known sequences of other family me This invention is the result of a contract with the Department of Energy (Contract No. W-7405-ENG-36).

Moyzis, Robert K. (Los Alamos, NM); Meyne, Julianne (Los Alamos, NM)

1991-01-01T23:59:59.000Z

386

International Standards in Forensic DNA  

E-Print Network [OSTI]

International Standards in Forensic DNA John M. Butler, Ph.D. National Institute of Standards and Technology NIST Fellow & Special Assistant to the Director for Forensic Science Vice-Chair, National Commission on Forensic Science World Forensics Festival Seoul, Korea October 15, 2014 #12;Definition

387

DNA Hybridization Catalysts and Catalyst Circuits  

E-Print Network [OSTI]

blocks for a synthetic DNA-based circuit. While ri- bozymes are the best known example of nucleic acids

Winfree, Erik

388

Amplification of chromosomal DNA in situ  

DOE Patents [OSTI]

Amplification of chromosomal DNA in situ to increase the amount of DNA associated with a chromosome or chromosome region is described. The amplification of chromosomal DNA in situ provides for the synthesis of Fluorescence in situ Hybridization (FISH) painting probes from single dissected chromosome fragments, the production of cDNA libraries from low copy mRNAs and improved in Comparative Genomic Hybridization (CGH) procedures.

Christian, Allen T. (Tracy, CA); Coleman, Matthew A. (Livermore, CA); Tucker, James D. (Livermore, CA)

2002-01-01T23:59:59.000Z

389

Mutations & DNA Repair I. What are Mutations?  

E-Print Network [OSTI]

­ one strand loops out and becomes displaced during replication ­ DNA pol stuttering ­ Occurs frequently

Dever, Jennifer A.

390

Breaking Up - And Making Up - Are Hard To Do | U.S. DOE Office of  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Breaking Up Breaking Up - And Making Up - Are Hard To Do News Featured Articles 2014 2013 2012 2011 2010 2009 2008 2007 2006 2005 Science Headlines Presentations & Testimony News Archives Contact Information Office of Science U.S. Department of Energy 1000 Independence Ave., SW Washington, DC 20585 P: (202) 586-5430 12.27.11 Breaking Up - And Making Up - Are Hard To Do But as Office of Science research shows, the results can be electric. Print Text Size: A A A Subscribe FeedbackShare Page It's said that breaking up is hard to do. That's undoubtedly true. And so is making up, as more than a few forlorn hearts have found. But when the lightning does strike, the electricity is lasting. What's true for the affairs of the heart also holds for the affairs of hydrogen, as researchers at the Office of Science's Argonne National

391

TeV scale left-right symmetry with spontaneous D-parity breaking  

SciTech Connect (OSTI)

The different scenarios of spontaneous breaking of D parity have been studied in both the nonsupersymmetric and the supersymmetric version of the left-right symmetric models (LRSM). We explore the possibility of a TeV scale SU(2){sub R} breaking scale M{sub R} and hence TeV scale right-handed neutrinos from both minimization of the scalar potential as well as the coupling constant unification point of view. We show that, although minimization of the scalar potential allows the possibility of a TeV scale M{sub R} and tiny neutrino masses in LRSM with spontaneous D-parity breaking, the gauge coupling unification at a high scale {approx}10{sup 16} GeV does not favor a TeV scale symmetry breaking except in the supersymmetric left-right model with Higgs doublet and bidoublet. The phenomenology of neutrino mass is also discussed.

Borah, Debasish [Indian Institute of Technology Bombay, Mumbai-400076 (India); Patra, Sudhanwa; Sarkar, Utpal [Physical Research Laboratory, Ahmedabad-380009 (India)

2011-02-01T23:59:59.000Z

392

Rapid generation of upwelling at a shelf break caused by buoyancy shutdown  

Science Journals Connector (OSTI)

Model analyses of an along-shelf flow over a continental shelf and slope reveal upwelling near the shelf break. A stratified, initially uniform along-shelf flow undergoes a rapid adjustment with notable differences onshore and offshore of the ...

Jessica Benthuysen; Leif N. Thomas; Steven J. Lentz

393

Electroweak symmetry breaking in the era of the Higgs boson discovery  

E-Print Network [OSTI]

In this thesis we study possible deviations from the electroweak symmetry breaking mechanism as predicted by the Standard Model (SM), and we introduce a new framework to analyze hadronic final states at colliders. In the ...

Bertolini, Daniele, Ph. D. Massachusetts Institute of Technology

2014-01-01T23:59:59.000Z

394

Break-up of Pt catalyst surfaces by high CO coverage  

E-Print Network [OSTI]

and atomic arrangement of catalyst surface under reactionof reactant molecules on the catalyst surfaces are the norm.Break-up of Pt catalyst surfaces by high CO coverage Feng

Tao, Feng

2010-01-01T23:59:59.000Z

395

Symmetry breaking in O+4: an application of the Brueckner coupled-cluster method  

Science Journals Connector (OSTI)

A recent calculation of the antisymmetric stretch frequency for the rectangular structure of quartet O+4 using the QCISD(T) method gave a value of 3710 cm?1. This anomalous frequency is shown to be a consequence of symmetry-breaking effects, which occur even though the QCISD(T) solution derived from a delocalized SCF reference function lies energetically well below the two localized (symmetry-broken) solutions at the equilibrium geometry. The symmetry breaking is almost eliminated at the CCSD level of theory, but the small remaining symmetry-breaking effects are magnified at the CCSD(T) level of theory so that the antisymmetric stretch frequency is still significantly in error. The Brueckner coupled-cluster method, however, leads to a symmetrical solution which is free of symmetry-breaking effects, with an antisymmetric stretch frequency of 1322 cm?1, in good agreement with our earlier calculations using the CASSCF/CASSI method.

Leslie A. Barnes; Roland Lindh

1994-01-01T23:59:59.000Z

396

Physics and learning based computational models for breaking bow waves based on new boundary immersion approaches  

E-Print Network [OSTI]

A ship moving on the free surface produces energetic breaking bow waves which generate spray and air entrainment. Present experimental, analytic, and numerical studies of this problem are costly, inaccurate and not robust. ...

Weymouth, Gabriel David

2008-01-01T23:59:59.000Z

397

Numerical evidence of turbulence generated by non-breaking surface waves  

Science Journals Connector (OSTI)

Numerical simulation of monochromatic surface waves propagating over a turbulent field is conducted to reveal the mechanism of turbulence production by non-breaking waves. The numerical model solves the primitive equations subject to the fully ...

Wu-ting Tsai; Shi-ming Chen; Guan-hung Lu

398

Introduction of Break-Out Session at the International PV Module Quality Assurance Forum (Presentation)  

SciTech Connect (OSTI)

This presentation outlines review requirements for quality assurance (QA) rating systems, logical design of QA systems, and specific tasks for break-out session 1 of the 2011 International PV Module Quality Assurance Forum.

Kurtz, S.; Wohlgemuth, J.; Yamamichi, M.; Sample, T.

2011-07-01T23:59:59.000Z

399

Double Ended Guillotine Break in a Prismatic Block VHTR Lower Plenum Air Ingress Scenario  

E-Print Network [OSTI]

The double ended guillotine break leading to density-driven air ingress has been identified as a low probability yet high consequence event for Very High Temperature Reactor (VHTR). The lower plenum of the VHTR contains the core support structure...

Hartley, Jessica

2012-10-19T23:59:59.000Z

400

Fluid-bubble interaction and dissipation mechanisms under unsteady breaking waves  

E-Print Network [OSTI]

Fluid-bubble interaction and dissipation mechanisms under unsteady breaking waves of air in bubbles that are believed to suppress liquid phase turbulence to incorporate entrained bubble populations using an Eulerian-Eulerian formulation

Kirby, James T.

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


401

U.S. gasoline prices decreases for 16th week in a row; breaking...  

U.S. Energy Information Administration (EIA) Indexed Site

18, 2015 U.S. gasoline prices decreases for 16th week in a row; breaking previous record set in 2008 (long version) The U.S. average retail price for regular gasoline fell 7.3...

402

U.S. gasoline prices decreases for 16th week in a row; breaking...  

U.S. Energy Information Administration (EIA) Indexed Site

gasoline prices decreases for 16th week in a row; breaking previous record set in 2008 (short version) The U.S. average retail price for regular gasoline fell 7.3 cents from a week...

403

E-Print Network 3.0 - anomaly-mediated supersymmetry breaking...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

; Physics 58 arXiv:hep-ph0103095v19Mar2001 Low-Energy Supersymmetry and its Phenomenology Summary: . This approach has been called anomaly-mediated SUSY-breaking (AMSB)....

404

Substitutional Routing for Trunk Line Break-Down in the Teletransmission Network  

Science Journals Connector (OSTI)

Trunk-line break-down in teletransmission network interrupts some number of the routes of some different links. It makes necessary to restore, at least partially, failed transmission possibilities for each affect...

dr ing. Kornel Wydro

1988-01-01T23:59:59.000Z

405

Spring Break Course in Florida! Forensic entomology is a branch of forensic sci-  

E-Print Network [OSTI]

Spring Break Course in Florida! Forensic entomology is a branch of forensic sci- ence utilizing the science of forensic en- tomology through daily laboratory and field ac- tivities. We also interact

406

Meta-DNA: A DNA-Based Approach to Synthetic Harish Chandran1  

E-Print Network [OSTI]

Meta-DNA: A DNA-Based Approach to Synthetic Biology Harish Chandran1 harish@cs.duke.edu Nikhil Gopalkrishnan, Bernard Yurke, John Reif, Meta-DNA: Synthetic Biology via DNA Nanostructures and Hybridization@cs.duke.edu Abstract The goal of synthetic biology is to design and assemble synthetic systems that mimic bio- logical

Reif, John H.

407

Identification of sequence-dependent DNA features correlating to activity of DNA sites interacting with proteins  

Science Journals Connector (OSTI)

......transcription factor MEF-2C for synthetic DNA (Meierhans et al ., 1997; Meierhans...Savinkova et al ., 1998) Synthetic DNA start 20 affinity yTBP/DNA X1...Bendall and Molloy, 1994) Synthetic DNA start X1 X2 10; 13 10; 18 depth......

MP Ponomarenko; JV Ponomarenko; AS Frolov; NL Podkolodny; LK Savinkova; NA Kolchanov; GC Overton

1999-07-01T23:59:59.000Z

408

DNA nanotubes and helical nanotapes via self-assembly of ssDNA-amphiphiles  

E-Print Network [OSTI]

DNA nanotubes and helical nanotapes via self- assembly of ssDNA-amphiphiles Timothy R. Pearcea and Efrosini Kokkoli*b DNA nanotubes were created using molecular self-assembly of single-stranded DNA (ss. The nanotube structures were formed by bilayers of amphiphiles, with the hydrophobic components forming

Kokkoli, Efie

409

Supplementary Information for: Integrating DNA Strand Displacement Circuitry with DNA Tile Self-assembly  

E-Print Network [OSTI]

Supplementary Information for: Integrating DNA Strand Displacement Circuitry with DNA Tile Self-assembly of Contents: · Supplementary Figures 1. Native polyacrylamide gel electrophoresis of DNA tile self-assembly 2. UV absorbance annealing and melting curves of DNA tile self-assembly 3. Characterization

Zhang, David Yu

410

DNA adsorption on synthetic and natural allophanes  

Science Journals Connector (OSTI)

The adsorption of DNA on natural and synthetic samples of allophane, which is a primary clay mineral of andosols, was investigated with respect to the DNA concentration, pH, ionic strength in the sample solution, and competition between DNA molecules and phosphate ions for adsorption to understand the behavior of extracellular DNA molecules in andosols. The relationships between DNA adsorption and the final concentrations were significantly fitted to a simple linear Langmuir equation. DNA adsorption decreased considerably with increasing suspension pH in the range between 3 and 9. The adsorption was less affected by the ionic strength of the suspension from 0.1 to 0.5 mol L? 1. Under the same experimental conditions, DNA adsorption on allophanes was relatively higher than that on montmorillonite and silica but relatively lower than that on gibbsite and goethite. DNA adsorption on allophanes decreased on the addition of phosphate, indicating that there was a competition between DNA molecules and phosphate ions for adsorption on the minerals. These results suggested that DNA adsorption on allophanes occurred via two mechanisms: direct bonding of the phosphate group at the end of the DNA molecule to the OH groups of the Al-oxide layer on allophane, and the association of DNA molecules with the surface of negatively charged allophane via a bridging of inorganic cations.

Kazutoshi Saeki; Masao Sakai; Shin-Ichiro Wada

2010-01-01T23:59:59.000Z

411

Electromechanical Unzipping of Individual DNA Molecules Using  

E-Print Network [OSTI]

Electromechanical Unzipping of Individual DNA Molecules Using Synthetic Sub-2 nm Pores Ben Mc synthetic pores can be used to electrome- chanically unzip DNA duplexes.13 However, direct measure- ment time that the unzipping kinetics of individual DNA duplexes can be probed by analyzing the dwell

412

DNA Nanotechnology and its Biological Applications1  

E-Print Network [OSTI]

1 DNA Nanotechnology and its Biological Applications1 Chapter 13 of Book: Bio-inspired and Nano, amplified sensing, and molecular transport. 13.1 Introduction 13.1.1 DNA Nanotechnology and its use conventional top-down manufacturing techniques. Other surveys of DNA nanotechnology and devices have been given

Reif, John H.

413

Self-assembled DNA Structures for Nanoconstruction  

E-Print Network [OSTI]

Self-assembled DNA Structures for Nanoconstruction Hao Yan, Peng Yin, Sung Ha Park, Hanying Li methods based on DNA self-assembly. Here we review our recent experimental progress to utilize novel DNA nanostructures for self-assembly as well as for templates in the fabrication of functional nano

Yin, Peng

414

HELICASE DEPENDENT AMPLICATION transfer the DNA  

E-Print Network [OSTI]

STEP 1 STEP 2 STEP 3 HELICASE DEPENDENT AMPLICATION HELICASE DNA POLYMERASE transfer the DNA instrumentation. MOLECULAR BIOMARKERS MADE UP DNA or RNA STRANDS ARE A POWERFUL WEAPON IN DETECTING DISEASE. USING for sample preparation at the point to care using only hand generated power.... #12;

415

Simulation of a small break loss of coolant accident conducted at the BETHSY Integral Test Facility  

E-Print Network [OSTI]

. The computer code RELAP5/MOD3 was used to model the BETHSY Integral Test Facility for a. small break loss of coolant accident. This transient simulates a 2 inch cold leg break without high pressure safety injection, following the conditions of International..., and general input to my gra, duate education. TABLE OF CONTENTS CHAPTER Page I INTRODUCTION I. 1 Need for Investigation I. 2 Computational Modeling . I. 3 Experimental Modeling I, 4 International Cooperation . 1 3 RELAP5 CODE DESCRIPTION II. 1...

Bott, Charles Patrick

1992-01-01T23:59:59.000Z

416

Self-Assembled DNA Crystals: The Impact on Resolution of 5?-Phosphates and the DNA Source  

Science Journals Connector (OSTI)

Self-assembled 3D DNA crystals; crystal resolution; phosphorylated DNA; natural and synthetic DNA; X-ray diffraction; designed crystals ... During the last two decades, we have found two instances where synthetic DNA did not produce the results expected from it, when used as an enzymatic substrate; by contrast, DNA generated by the polymerase chain reaction (PCR) was an effective substrate. ... One example was the low level at which a synthetic DNA molecule was transcribed by T7 RNA polymerase to produce an RNA knot;(6, 7) the other instance was the incomplete restriction of a DNA graph assembled from synthetic branched junctions. ...

Ruojie Sha; Jens J. Birktoft; Nam Nguyen; Arun Richard Chandrasekaran; Jianping Zheng; Xinshuai Zhao; Chengde Mao; Nadrian C. Seeman

2013-01-16T23:59:59.000Z

417

DNA–DNA interactions in bacteriophage capsids are responsible for the observed DNA knotting  

Science Journals Connector (OSTI)

...cholesteric liquid crystals. This interaction...polymers confined in a spherical cavity produces, on the...term that disfavors bent-chain configurations...the surface of the spherical capsid (45 nm diameter...cholesteric liquid crystals of DNA . Eur Phys...cholesteric liquid crystals. This interaction...

Davide Marenduzzo; Enzo Orlandini; Andrzej Stasiak; De Witt Sumners; Luca Tubiana; Cristian Micheletti

2009-01-01T23:59:59.000Z

418

Nearest-neighbor distributions of free radicals produced within charged-particle tracks in liquid water  

E-Print Network [OSTI]

for 20-MeV alpha particles compared to maximum double strand break distance INTRODUCTION All forms of ionizing radiation eventually produce charged particles which are responsible for depositing all of the energy to the medium being irradiated. We... quantify this energy deposition in terms of absorbed dose. The definition of absorbed dose is the energy absorbed per unit mass from any kind of ionizing radiation in any type of matter (2). It has long been recognized that different types of radiation...

Smith, Miles Clay

2012-06-07T23:59:59.000Z

419

Microfluidic DNA sample preparation method and device  

DOE Patents [OSTI]

Manipulation of DNA molecules in solution has become an essential aspect of genetic analyses used for biomedical assays, the identification of hazardous bacterial agents, and in decoding the human genome. Currently, most of the steps involved in preparing a DNA sample for analysis are performed manually and are time, labor, and equipment intensive. These steps include extraction of the DNA from spores or cells, separation of the DNA from other particles and molecules in the solution (e.g. dust, smoke, cell/spore debris, and proteins), and separation of the DNA itself into strands of specific lengths. Dielectrophoresis (DEP), a phenomenon whereby polarizable particles move in response to a gradient in electric field, can be used to manipulate and separate DNA in an automated fashion, considerably reducing the time and expense involved in DNA analyses, as well as allowing for the miniaturization of DNA analysis instruments. These applications include direct transport of DNA, trapping of DNA to allow for its separation from other particles or molecules in the solution, and the separation of DNA into strands of varying lengths.

Krulevitch, Peter A. (Pleasanton, CA); Miles, Robin R. (Danville, CA); Wang, Xiao-Bo (San Diego, CA); Mariella, Raymond P. (Danville, CA); Gascoyne, Peter R. C. (Bellaire, TX); Balch, Joseph W. (Livermore, CA)

2002-01-01T23:59:59.000Z

420

Human Genome Research: Decoding DNA  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Human Genome Research: Decoding DNA Human Genome Research: Decoding DNA Resources with Additional Information Charles DeLisi As head of DOE's Office of Health and Environmental Research, Charles DeLisi played a pivotal role in proposing and initiating the Human Genome Program in 1986. The U.S. Department of Energy (DOE) has historically been active in supporting human genome research. On September 10, 2003, Secretary of Energy Spencer Abraham presented the Secretary's Gold Award to Aristides Patrinos and Francis Collins for their leadership of the government's Human Genome Project. At DOE's Office of Science, Dr. Patrinos is the Associate Director for Biological and Environmental Research. He has been a researcher at the department's Oak Ridge National Laboratory and Brookhaven National Laboratory.

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


421

Electromagnetic Signals from Bacterial DNA  

E-Print Network [OSTI]

Chemical reactions can be induced at a distance due to the propagation of electromagnetic signals during intermediate chemical stages. Although is is well known at optical frequencies, e.g. photosynthetic reactions, electromagnetic signals hold true for muck lower frequencies. In E. coli bacteria such electromagnetic signals can be generated by electric transitions between energy levels describing electrons moving around DNA loops. The electromagnetic signals between different bacteria within a community is a "wireless" version of intercellular communication found in bacterial communities connected by "nanowires". The wireless broadcasts can in principle be of both the AM and FM variety due to the magnetic flux periodicity in electron energy spectra in bacterial DNA orbital motions.

A. Widom; J. Swain; Y. N. Srivastava; S. Sivasubramanian

2012-02-09T23:59:59.000Z

422

Garcinol, a Histone Acetyltransferase Inhibitor, Radiosensitizes Cancer Cells by Inhibiting Non-Homologous End Joining  

SciTech Connect (OSTI)

Purpose: Non-homologous end joining (NHEJ), a major pathway used to repair DNA double-strand breaks (DSBs) generated by ionizing radiation (IR), requires chromatin remodeling at DSB sites through the acetylation of histones by histone acetyltransferases (HATs). However, the effect of compounds with HAT inhibitory activities on the DNA damage response (DDR), including the NHEJ and cell cycle checkpoint, as well as on the radiosensitivity of cancer cells, remains largely unclear. Here, we investigated whether garcinol, a HAT inhibitor found in the rinds of Garcinia indica fruit (called mangosteens), has effects on DDR, and whether it can be used for radiosensitization. Methods and Materials: The following assays were used to examine the effect of garcinol on the inhibition of DSB repair, including the following: a conventional neutral comet assay; a cell-based assay recently developed by us, in which NHEJ repair of DSBs on chromosomal DNA was evaluated; the micrococcal nuclease sensitivity assay; and immunoblotting for autophosphorylation of DNA-dependent protein kinase catalytic subunit (DNA-PKcs). We assessed the effect of garcinol on the cell cycle checkpoint after IR treatment by analyzing the phosphorylation levels of checkpoint kinases CHK1 and CHK2 and histone H3, and by cell cycle profile analysis using flow cytometry. The radiosensitizing effect of garcinol was assessed by a clonogenic survival assay, whereas its effects on apoptosis and senescence were examined by annexin V and senescence-associated {beta}-galactosidase (SA-{beta}-Gal) staining, respectively. Results: We found that garcinol inhibits DSB repair, including NHEJ, without affecting cell cycle checkpoint. Garcinol radiosensitized A549 lung and HeLa cervical carcinoma cells with dose enhancement ratios (at 10% surviving fraction) of 1.6 and 1.5, respectively. Cellular senescence induced by IR was enhanced by garcinol. Conclusion: These results suggest that garcinol is a radiosensitizer that inhibits NHEJ and facilitates senescence without impairing activation of the cell cycle checkpoint.

Oike, Takahiro [Division of Multistep Carcinogenesis, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan) [Division of Multistep Carcinogenesis, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan); Division of Genome Biology, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan); Department of Radiation Oncology, Gunma University Graduate School of Medicine, Maebashi, Gunma (Japan); Ogiwara, Hideaki [Division of Genome Biology, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan)] [Division of Genome Biology, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan); Torikai, Kohta [Gunma University Heavy Ion Medical Center, Maebashi, Gunma (Japan)] [Gunma University Heavy Ion Medical Center, Maebashi, Gunma (Japan); Nakano, Takashi [Department of Radiation Oncology, Gunma University Graduate School of Medicine, Maebashi, Gunma (Japan)] [Department of Radiation Oncology, Gunma University Graduate School of Medicine, Maebashi, Gunma (Japan); Yokota, Jun [Division of Multistep Carcinogenesis, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan)] [Division of Multistep Carcinogenesis, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan); Kohno, Takashi, E-mail: tkkohno@ncc.go.jp [Division of Genome Biology, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan)] [Division of Genome Biology, National Cancer Center Research Institute, Chuo-ku, Tokyo (Japan)

2012-11-01T23:59:59.000Z

423

Effects of $?$-cluster breaking on 3$?$ cluster structures in $^{12}$C  

E-Print Network [OSTI]

To clarify the effects of $\\alpha$-cluster breaking on 3$\\alpha$ cluster structures in $^{12}$C, we investigate $^{12}$C using a hybrid model that combines the Brink-Bloch cluster model with the $p_{3/2}$ subshell closure wave function. We have found that $\\alpha$-cluster breaking caused by spin-orbit force significantly changes cluster structures of excited $0^{+}$ states through orthogonality to lower states. Spatially developed cluster components of the $0^{+}_{2}$ state are reduced. The $0^{+}_{3}$ state changes from a vibration mode in the bending motion of three $\\alpha$ clusters to a chain-like 3$\\alpha$ structure having an open triangle configuration. As a result of these structure changes of $0^{+}$ states, the band assignment for the $2^{+}_{2}$ state is changed by the $\\alpha$-cluster breaking effect. Namely, in model calculations without the $\\alpha$-cluster breaking effect, the $0^{+}_{2}$ state is assigned to be the band-head of the $2^{+}_{2}$ state. However, when we incorporate $\\alpha$-cluster breaking caused by the spin-orbit force, the $0^{+}_{3}$ state is regarded as the band-head of the $2^{+}_{2}$ state.

Tadahiro Suhara; Yoshiko Kanada-En'yo

2014-11-05T23:59:59.000Z

424

The noise spectral parameters and the energy of breaking waves experimental study  

Science Journals Connector (OSTI)

The process of wave breaking and whitecap creation is one of the most important and least understood phenomena associated with the evolution of the surface gravity waves in the open sea. This process is the main way of energy and momentum transfer between ocean and atmosphere. However it is very difficult to estimate under real sea conditions the frequency of breaking wave events or the fraction of sea surface covered by whitecaps and the amount of dissipated energy produced by wave breaking. A controlled experiment was carried out in the Ocean Basin Laboratory at MARINTEK Trondheim (Norway). The simulation of random waves of the prescribed spectra provided a very realistic pattern of the sea surface. The number of breaking waves was estimated using photography method and wave staff recording. Acoustic measurements during the experiments were conducted in order to examine the relationship between the noise spectral parameters and both the whitecap coverage and dissipation energy of breaking waves for different types of waves. A comparison of simultaneous video observations wave staff records of the surface wave above the hydrophones with the spectral parameters of acoustical signals made it possible to find physical links between processes.

2003-01-01T23:59:59.000Z

425

Transgenic plants are sensitive bioindicators of nuclear pollution caused by the Chernobyl accident  

SciTech Connect (OSTI)

To evaluate the genetic consequences of radioactive contamination originating from the Nuclear reactor accident of Chernobyl on indigenous populations of plants and animals, it is essential to determine the rates of accumulating genetic changes in chronically irradiated populations. An increase in germline mutation rates in humans living close to the Chernobyl Nuclear Power Plant site, and a two- to tenfold increase in germline mutations in barn swallows breeding in Chernobyl have been reported. Little is known, however, about the effects of chronic irradiation on plant genomes. Ionizing radiation causes double-strand breaks in DNA, which are repaired via illegitimate or homologous recombination. The authors make use of Arabidopsis thaliana plants carrying a {beta}-glucuronidase marker gene as a recombination substrate to monitor genetic alterations in plant populations, which are caused by nuclear pollution of the environment around Chernobyl. A significant increase in somatic intrachromosomal recombination frequencies was observed at nuclear pollution levels from 0.1--900 Ci/km{sup 2}, consistent with an increase in chromosomal aberrations. This bioindicator may serve as a convenient and ethically acceptable alternative to animal systems.

Kovalchuk, I.; Kovalchuk, O. [Ivano-Frankivsk State Medical Academy (Ukraine)]|[Friedrich Miescher Inst., Basel (Switzerland); Arkhipov, A. [Chernobyl Scientific and Technical Center of International Research (Ukraine); Hohn, B. [Friedrich Miescher Inst., Basel (Switzerland)

1998-11-01T23:59:59.000Z

426

Subcellular Spatial Correlation of Particle Traversal and Biological Response in Clinical Ion Beams  

SciTech Connect (OSTI)

Purpose: To report on the spatial correlation of physical track information (fluorescent nuclear track detectors, FNTDs) and cellular DNA damage response by using a novel hybrid detector (Cell-Fit-HD). Methods and Materials: The FNTDs were coated with a monolayer of human non-small cell lung carcinoma (A549) cells and irradiated with carbon ions (270.55 MeV u{sup ?1}, rising flank of the Bragg peak). Phosphorylated histone variant H2AX accumulating at the irradiation-induced double-strand break site was labeled (RIF). The position and direction of ion tracks in the FNTD were registered with the location of the RIF sequence as an ion track surrogate in the cell layer. Results: All RIF sequences could be related to their corresponding ion tracks, with mean deviations of 1.09 ?m and ?1.72 ?m in position and of 2.38° in slope. The mean perpendicular between ion track and RIF sequence was 1.58 ?m. The mean spacing of neighboring RIFs exhibited a regular rather than random spacing. Conclusions: Cell-Fit-HD allows for unambiguous spatial correlation studies of cell damage with respect to the intracellular ion traversal under therapeutic beam conditions.

Niklas, Martin, E-mail: m.niklas@dkfz.de [Division of Medical Physics in Radiation Oncology, German Cancer Research Center, Heidelberg (Germany); German Cancer Consortium, National Center for Radiation Research in Oncology, Heidelberg Institute of Radiation Oncology, Heidelberg (Germany); Abdollahi, Amir [German Cancer Consortium, National Center for Radiation Research in Oncology, Heidelberg Institute of Radiation Oncology, Heidelberg (Germany); Molecular and Translational Radiation Oncology, Heidelberg Ion-Beam Therapy Center, University of Heidelberg Medical School and National Center for Tumor Diseases, German Cancer Research Center, Heidelberg (Germany); Department of Radiation Oncology and Radiation Therapy, University Hospital Heidelberg, Heidelberg (Germany); Heidelberg Ion-Beam Therapy Center, Heidelberg (Germany); Akselrod, Mark S. [Stillwater Crystal Growth Division, Landauer Inc, Stillwater, Oklahoma (United States); Debus, Jürgen [German Cancer Consortium, National Center for Radiation Research in Oncology, Heidelberg Institute of Radiation Oncology, Heidelberg (Germany); Molecular and Translational Radiation Oncology, Heidelberg Ion-Beam Therapy Center, University of Heidelberg Medical School and National Center for Tumor Diseases, German Cancer Research Center, Heidelberg (Germany); Department of Radiation Oncology and Radiation Therapy, University Hospital Heidelberg, Heidelberg (Germany); Heidelberg Ion-Beam Therapy Center, Heidelberg (Germany); Jäkel, Oliver [Division of Medical Physics in Radiation Oncology, German Cancer Research Center, Heidelberg (Germany); German Cancer Consortium, National Center for Radiation Research in Oncology, Heidelberg Institute of Radiation Oncology, Heidelberg (Germany); Department of Radiation Oncology and Radiation Therapy, University Hospital Heidelberg, Heidelberg (Germany); Heidelberg Ion-Beam Therapy Center, Heidelberg (Germany); and others

2013-12-01T23:59:59.000Z

427

A Link between Meiotic Prophase Progression and CrossoverControl  

SciTech Connect (OSTI)

During meiosis, most organisms ensure that homologous chromosomes undergo at least one exchange of DNA, or crossover, to link chromosomes together and accomplish proper segregation. How each chromosome receives a minimum of one crossover is unknown. During early meiosis in Caenorhabditis elegans and many other species, chromosomes adopt a polarized organization within the nucleus, which normally disappears upon completion of homolog synapsis. Mutations that impair synapsis even between a single pair of chromosomes in C. elegans delay this nuclear reorganization. We quantified this delay by developing a classification scheme for discrete stages of meiosis. Immunofluorescence localization of RAD-51 protein revealed that delayed meiotic cells also contained persistent recombination intermediates. Through genetic analysis, we found that this cytological delay in meiotic progression requires double-strand breaks and the function of the crossover-promoting heteroduplex HIM-14 (Msh4) and MSH-5. Failure of X chromosome synapsis also resulted in impaired crossover control on autosomes, which may result from greater numbers and persistence of recombination intermediates in the delayed nuclei. We conclude that maturation of recombination events on chromosomes promotes meiotic progression, and is coupled to the regulation of crossover number and placement. Our results have broad implications for the interpretation of meiotic mutants, as we have shown that asynapsis of a single chromosome pair can exert global effects on meiotic progression and recombination frequency.

Carlton, Peter M.; Farruggio, Alfonso P.; Dernburg, Abby F.

2005-07-06T23:59:59.000Z

428

Single molecule studies of DNA mismatch repair  

Science Journals Connector (OSTI)

Abstract DNA mismatch repair, which involves is a widely conserved set of proteins, is essential to limit genetic drift in all organisms. The same system of proteins plays key roles in many cancer related cellular transactions in humans. Although the basic process has been reconstituted in vitro using purified components, many fundamental aspects of DNA mismatch repair remain hidden due in part to the complexity and transient nature of the interactions between the mismatch repair proteins and DNA substrates. Single molecule methods offer the capability to uncover these transient but complex interactions and allow novel insights into mechanisms that underlie DNA mismatch repair. In this review, we discuss applications of single molecule methodology including electron microscopy, atomic force microscopy, particle tracking, FRET, and optical trapping to studies of DNA mismatch repair. These studies have led to formulation of mechanistic models of how proteins identify single base mismatches in the vast background of matched DNA and signal for their repair.

Dorothy A. Erie; Keith R. Weninger

2014-01-01T23:59:59.000Z

429

Breaking Down Enzymes' Role in Biofuel Production | U.S. DOE Office of  

Office of Science (SC) Website

Breaking Down Enzymes' Role in Biofuel Production Breaking Down Enzymes' Role in Biofuel Production Biological and Environmental Research (BER) BER Home About Research Facilities Science Highlights Searchable Archive of BER Highlights External link Benefits of BER Funding Opportunities Biological & Environmental Research Advisory Committee (BERAC) News & Resources Contact Information Biological and Environmental Research U.S. Department of Energy SC-23/Germantown Building 1000 Independence Ave., SW Washington, DC 20585 P: (301) 903-3251 F: (301) 903-5051 E: sc.ber@science.doe.gov More Information » February 2013 Breaking Down Enzymes' Role in Biofuel Production Molecular structures provide insights into biomass deconstruction. Print Text Size: A A A Subscribe FeedbackShare Page Click to enlarge photo. Enlarge Photo

430

Record-breaking year for patents | Y-12 National Security Complex  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Record-breaking year for ... Record-breaking year for ... Record-breaking year for patents Posted: February 11, 2013 - 2:57pm | Y-12 Report | Volume 9, Issue 2 | 2013 Fiscal 2012 was a fruitful year for innovative research and development at the Y-12 National Security Complex. Site inventors were issued an unprecedented 11 patents. Technologies and processes from many of Y-12's latest patents, like those from previous years, can extend beyond the Nuclear Security Enterprise into diverse areas of private industry. One technology, the measurement system Extrans, determines how much water permeates a material. At Y-12 this measuring method can protect moisture-sensitive material from corroding. In the food or pharmaceutical industry, however, Extrans could test product packaging to ensure that no

431

Breaking a Cycle-Free Lifestyle for Earth Day | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking a Cycle-Free Lifestyle for Earth Day Breaking a Cycle-Free Lifestyle for Earth Day Breaking a Cycle-Free Lifestyle for Earth Day April 12, 2012 - 12:07pm Addthis Elizabeth Spencer Communicator, National Renewable Energy Laboratory Earth Day is just around the corner! And while it might not be a major day for most people, I still think it's kind of fun. I think every special day is an excuse to do something you normally wouldn't! (And, speaking of little somethings, the Energy Efficiency and Renewable Energy website is going to have a small page up to commemorate Earth Day this year. Look for that next week.) This Earth Day, I'm buying a new bicycle! Now, before I start, let me get this out of the way: Bikes and I have not historically gotten along. When I was a young girl, I was so thrilled to

432

Breaking a Cycle-Free Lifestyle for Earth Day | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking a Cycle-Free Lifestyle for Earth Day Breaking a Cycle-Free Lifestyle for Earth Day Breaking a Cycle-Free Lifestyle for Earth Day April 12, 2012 - 12:07pm Addthis Elizabeth Spencer Communicator, National Renewable Energy Laboratory Earth Day is just around the corner! And while it might not be a major day for most people, I still think it's kind of fun. I think every special day is an excuse to do something you normally wouldn't! (And, speaking of little somethings, the Energy Efficiency and Renewable Energy website is going to have a small page up to commemorate Earth Day this year. Look for that next week.) This Earth Day, I'm buying a new bicycle! Now, before I start, let me get this out of the way: Bikes and I have not historically gotten along. When I was a young girl, I was so thrilled to

433

DuPont Technology Breaks Away From Glass | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

DuPont Technology Breaks Away From Glass DuPont Technology Breaks Away From Glass DuPont Technology Breaks Away From Glass April 22, 2010 - 4:20pm Addthis Delaware-based DuPont is working to develop ultra-thin moisture protective films for photovoltaic panels - so thin they're about 1,000 times thinner than a human hair. DuPont is working on new photovoltaic technology that will let manufacturers of copper indium gallium selenide, or CIGS, solar cells and organic light emitting diodes, or OLED, displays protect products with thin layers of ceramic and polymer material instead of glass. These ultra-thin protective films could help prevent deterioration from moisture. Because of their potential to reduce the cost of producing solar energy, "thin-film PV modules are projected to be the fastest-growing segment of

434

Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility |  

Broader source: Energy.gov (indexed) [DOE]

Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility August 13, 2013 - 10:54am Addthis News Media Contact (202) 586-4940 WASHINGTON - Building on President Obama's Climate Action Plan, which calls for steady, responsible steps to reduce carbon pollution, the Energy Department today broke ground on the nation's largest federally-owned wind project at the Pantex Plant in Amarillo, Texas. Once completed, this five-turbine 11.5 megawatt project will power more than 60 percent of the plant with clean, renewable wind energy and reduce carbon emissions by over 35,000 metric tons per year - equivalent to taking 7,200 cars off the road. The Pantex Plant is the primary site for the assembly, disassembly,

435

Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility |  

Broader source: Energy.gov (indexed) [DOE]

Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility Largest Federally-Owned Wind Farm Breaks Ground at U.S. Weapons Facility August 13, 2013 - 10:54am Addthis News Media Contact (202) 586-4940 WASHINGTON - Building on President Obama's Climate Action Plan, which calls for steady, responsible steps to reduce carbon pollution, the Energy Department today broke ground on the nation's largest federally-owned wind project at the Pantex Plant in Amarillo, Texas. Once completed, this five-turbine 11.5 megawatt project will power more than 60 percent of the plant with clean, renewable wind energy and reduce carbon emissions by over 35,000 metric tons per year - equivalent to taking 7,200 cars off the road. The Pantex Plant is the primary site for the assembly, disassembly,

436

Breaking Up (Hydrogen) No Longer As Hard To Do | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking Up (Hydrogen) No Longer As Hard To Do Breaking Up (Hydrogen) No Longer As Hard To Do Breaking Up (Hydrogen) No Longer As Hard To Do December 29, 2011 - 1:12pm Addthis Researchers at Argonne National Lab have recently developed a process to improve the efficiency of producing hydrogen to run cars such as this prototype, which was developed at the Oakridge National Lab. | Photo courtesy of Oak Ridge National Laboratory. Researchers at Argonne National Lab have recently developed a process to improve the efficiency of producing hydrogen to run cars such as this prototype, which was developed at the Oakridge National Lab. | Photo courtesy of Oak Ridge National Laboratory. Charles Rousseaux Charles Rousseaux Senior Writer, Office of Science What does this project do? Researchers have new insight into producing pure hydrogen -- a

437

DuPont Technology Breaks Away From Glass | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

DuPont Technology Breaks Away From Glass DuPont Technology Breaks Away From Glass DuPont Technology Breaks Away From Glass April 22, 2010 - 4:20pm Addthis Delaware-based DuPont is working to develop ultra-thin moisture protective films for photovoltaic panels - so thin they're about 1,000 times thinner than a human hair. DuPont is working on new photovoltaic technology that will let manufacturers of copper indium gallium selenide, or CIGS, solar cells and organic light emitting diodes, or OLED, displays protect products with thin layers of ceramic and polymer material instead of glass. These ultra-thin protective films could help prevent deterioration from moisture. Because of their potential to reduce the cost of producing solar energy, "thin-film PV modules are projected to be the fastest-growing segment of

438

Breaking Up (Hydrogen) No Longer As Hard To Do | Department of Energy  

Broader source: Energy.gov (indexed) [DOE]

Breaking Up (Hydrogen) No Longer As Hard To Do Breaking Up (Hydrogen) No Longer As Hard To Do Breaking Up (Hydrogen) No Longer As Hard To Do December 29, 2011 - 1:12pm Addthis Researchers at Argonne National Lab have recently developed a process to improve the efficiency of producing hydrogen to run cars such as this prototype, which was developed at the Oakridge National Lab. | Photo courtesy of Oak Ridge National Laboratory. Researchers at Argonne National Lab have recently developed a process to improve the efficiency of producing hydrogen to run cars such as this prototype, which was developed at the Oakridge National Lab. | Photo courtesy of Oak Ridge National Laboratory. Charles Rousseaux Charles Rousseaux Senior Writer, Office of Science What does this project do? Researchers have new insight into producing pure hydrogen -- a

439

Enhancing the DNA Patent Database  

SciTech Connect (OSTI)

Final Report on Award No. DE-FG0201ER63171 Principal Investigator: LeRoy B. Walters February 18, 2008 This project successfully completed its goal of surveying and reporting on the DNA patenting and licensing policies at 30 major U.S. academic institutions. The report of survey results was published in the January 2006 issue of Nature Biotechnology under the title “The Licensing of DNA Patents by US Academic Institutions: An Empirical Survey.” Lori Pressman was the lead author on this feature article. A PDF reprint of the article will be submitted to our Program Officer under separate cover. The project team has continued to update the DNA Patent Database on a weekly basis since the conclusion of the project. The database can be accessed at dnapatents.georgetown.edu. This database provides a valuable research tool for academic researchers, policymakers, and citizens. A report entitled Reaping the Benefits of Genomic and Proteomic Research: Intellectual Property Rights, Innovation, and Public Health was published in 2006 by the Committee on Intellectual Property Rights in Genomic and Protein Research and Innovation, Board on Science, Technology, and Economic Policy at the National Academies. The report was edited by Stephen A. Merrill and Anne-Marie Mazza. This report employed and then adapted the methodology developed by our research project and quoted our findings at several points. (The full report can be viewed online at the following URL: http://www.nap.edu/openbook.php?record_id=11487&page=R1). My colleagues and I are grateful for the research support of the ELSI program at the U.S. Department of Energy.

Walters, LeRoy B.

2008-02-18T23:59:59.000Z

440

Self-Assembly of Metal-DNA Triangles and DNA Nanotubes with Synthetic Junctions  

Science Journals Connector (OSTI)

While DNA represents one of nature’s most predictable ... catalytic properties that are not observed naturally for DNA. Conceptually, this brings the toolbox of ... a diverse array of structures and functions usi...

Hua Yang; Pik Kwan Lo; Christopher K. McLaughlin; Graham D. Hamblin…

2011-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


441

A Synthetic DNA Walker for Molecular Transport  

Science Journals Connector (OSTI)

A Synthetic DNA Walker for Molecular Transport ... The authors report the incrementally staged design, synthesis, characterization, and operation of a mol. ...

Jong-Shik Shin; Niles A. Pierce

2004-08-17T23:59:59.000Z

442

IT for synthetic biology and DNA nanotechnology  

Science Journals Connector (OSTI)

Somewhere between the studies of information technology and organic chemistry, researchers are trying to make tiny robots out of DNA molecules.

Masami Hagiya; Fumiaki Tanaka; Ibuki Kawamata

2010-09-01T23:59:59.000Z

443

j5 DNA Assembly Design Automation Software  

Science Journals Connector (OSTI)

j5 DNA Assembly Design Automation Software ... Here, we report the development and deployment of a web-based software tool, j5, which automates the design of scar-less multipart DNA assembly protocols including SLIC, Gibson, CPEC, and Golden Gate. ... The key innovations of the j5 design process include cost optimization, leveraging DNA synthesis when cost-effective to do so, the enforcement of design specification rules, hierarchical assembly strategies to mitigate likely assembly errors, and the instruction of manual or automated construction of scar-less combinatorial DNA libraries. ...

Nathan J. Hillson; Rafael D. Rosengarten; Jay D. Keasling

2011-12-07T23:59:59.000Z

444

The concepts of leak before break and absolute reliability of NPP equipment and piping  

SciTech Connect (OSTI)

This paper describes the absolute reliability (AR) concept for ensuring safe operation of nuclear plant equipment and piping. The AR of a pipeline or component is defined as the level of reliability when the probability of an instantaneous double-ended break is near zero. AR analysis has been applied to Russian RBMK and VVER type reactors. It is proposed that analyses required for application of the leak before break concept should be included in AR implementation. The basic principles, methods, and approaches that provide the basis for implementing the AR concept are described.

Getman, A.F.; Komarov, O.V.; Sokov, L.M. [and others

1997-04-01T23:59:59.000Z

445

Small break LOCA analysis of the ONRL high flux isotope reactor  

SciTech Connect (OSTI)

A digital simulation program, HFIRSYS, was developed using MMS to analyze small break loss of coolant events in the ORNL High Flux Isotope Reactor. The code evaluates the response of the primary reactor system including automatic controls actions resulting from breaks in auxiliary piping connected to the primary. The primary output of the code is the margin to the onset of nucleate boiling expressed as a ratio of heat flux which would cause boiling to the current hot channel heat flux. A description of the model, validation results and a sample transient are presented.

Wilson, T.L. Jr.; Cook, D.H.; Sozer, A.

1988-01-01T23:59:59.000Z

446

Isospin Symmetry Breaking and Octet Baryon Masses due to Their Mixing with Decuplet Baryons  

E-Print Network [OSTI]

We study the isospin symmetry breaking and mass splittings of the eight lowest-lying baryons. We consider three kinds of baryon mass terms, including the bare mass term, the electromagnetic terms and the spontaneous chiral symmetry breaking terms. We include the mixing term between flavor-octet and flavor-decuplet baryons. This assumes that the lowest-lying Sigma and Xi baryons contain a few decuplet components and so are not purely flavor-octet. We achieve a good fitting that the difference between every fitted mass and its experimental value is less than 0.2 MeV.

Hua-Xing Chen

2013-12-05T23:59:59.000Z

447

Codeword design and information encoding in DNA ensembles  

Science Journals Connector (OSTI)

Encoding of information in DNA-, RNA- and other biomolecules is an important area of research in fields such as DNA computing, bioinformatics, and, conceivably, microbiology and genetics. This survey focuses on two fundamental problems, the codeword ... Keywords: h-distance, DNA space dimension, DNA-based computing, Gibbs energy, codeword design, information encoding in DNA, partition function, template method, tensor product

Max H. Garzon; Russell J. Deaton

2004-08-01T23:59:59.000Z

448

Comparison of genomic, plasmid, synthetic, and combined DNA probes for detecting Plasmodium falciparum DNA.  

Science Journals Connector (OSTI)

...pRepHind, and a 21-base-long synthetic DNA probe (PFR1), the sequence...second brief hybridization with synthetic DNA to amplify signals from samples...pRepHind, and a 21-base-long synthetic DNA probe (PFR1), the sequence...

G L McLaughlin; W E Collins; G H Campbell

1987-05-01T23:59:59.000Z

449

DNA barcoding of stranded marine mammals 5 The use of DNA barcoding to monitor the marine  

E-Print Network [OSTI]

barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. In: Nagy ZT, Backeljau of the monitoring of marine mammal biodiversity. Keywords DNA barcoding, COI, control region, marine mammalsDNA barcoding of stranded marine mammals 5 The use of DNA barcoding to monitor the marine mammal

Paris-Sud XI, Université de

450

Magnetic study of the electronic states in B-DNA and M-DNA doped with metal ions Kenji Mizoguchi,  

E-Print Network [OSTI]

- tivity of synthetic DNA (poly(G)-poly(C)) with a length of 10 nm to find a semiconducting behaviorMagnetic study of the electronic states in B-DNA and M-DNA doped with metal ions Kenji Mizoguchi. Purified salmon DNA gives intrinsically no EPR signal, which is consistent with DNA being a semiconductor

Mizoguchi, Kenji

451

A fluorescence method to detect photo-activated repair of UV-induced DNA damage in marine organisms  

SciTech Connect (OSTI)

After UV exposure, marine microorganisms may re-activate their photosynthetic systems or regain their pre-exposure metabolic rates, but they will not long survive, nor grow or reproduce, if they cannot repair DNA or ERN damage. Several repair mechanisms, including nucleotide excision repair and photo-reactivation, are known in terrestrial organisms, but there is little information on either process in marine microorganisms. Photo-reactivation may be especially important near the ocean surface where a few meters difference in vertical position or a few hours difference in time may alleviate UV-irradiation stress yet still provide sufficient light for photoactivated repair processes. We have developed a relatively simple, sensitive method to measure the activity of the photo-reactivation enzyme, photolyase, by fluorometry. UV irradiation causes adjacent thymine nucleotides in DNA to form cyclobutane dimers. Photolyase attaches to the dimerized DNA then breaks the dimers in a reaction catalyzed by visible light, thereby allowing restoration of cross-strand base pairing. Our assay for photolyase activity involves a dimerized synthetic DNA and DNA-specific fluorochromes with affinity for thymine-rich regions of DNA. When thymine dimers are present, fluorescence of these dyes is reduced. As dimers are repaired, fluorescence increases, allowing us to demonstrate the presence of photolyase and measure its activity using conventional fluorometers available in most marine laboratories. Photo-reactivation activity has been unambiguously demonstrated in samples of coastal seawater. In preliminary investigations, cells taken from surface slicks did not have enhanced photo-repair capabilities relative to cells collected 5 meters below the surface. Additional tests of the method and measurements of photo-repair activities of surface and subsurface organisms will be made during the SLIX-89 Surface Microlayer Experiment in October 1989.

Carlson, D.J.; Mordy, C.W.; Nelson, K. (Oregon State Univ., Corvallis (United States))

1990-01-09T23:59:59.000Z

452

Property:NEPA DNA Worksheet | Open Energy Information  

Open Energy Info (EERE)

DNA Worksheet DNA Worksheet Jump to: navigation, search Property Name NEPA DNA Worksheet Property Type Page Description DNA Worksheet files for NEPA Docs. This is a property of type Page. It links to pages that use the form NEPA_Doc. Pages using the property "NEPA DNA Worksheet" Showing 19 pages using this property. D DOI-BLM-NV-C010-2011-0517-DNA + DOI-BLM-NV-C010-2011-0517-DNA.pdf + DOI-BLM-NV-C010-2012--044-DNA + DOI-BLM-NV-C010-2012-0044-DNA.pdf + DOI-BLM-NV-C010-2012-0005-DNA + DOI-BLM-NV-C010-2012-0005-DNA.pdf + DOI-BLM-NV-C010-2012-0016-DNA + DOI-BLM-NV-C010-2012-0016-DNA.pdf + DOI-BLM-NV-C010-2012-0019-DNA + DOI-BLM-NV-C010-2012-0019-DNA.pdf + DOI-BLM-NV-C010-2012-0020-DNA + DOI-BLM-NV-C010-2012-0020-DNA.pdf + DOI-BLM-NV-C010-2012-0028-DNA + DOI-BLM-NV-C010-2012-0028-DNA.pdf +

453

Carbon Nanotube DNA Sensor and Sensing Mechanism  

E-Print Network [OSTI]

Carbon Nanotube DNA Sensor and Sensing Mechanism Xiaowu Tang,*,, Sarunya Bansaruntip, Nozomi; Revised Manuscript Received June 7, 2006 ABSTRACT We report the fabrication of single-walled carbon nanotube (SWNT) DNA sensors and the sensing mechanism. The simple and generic protocol for label

Le Roy, Robert J.

454

The Initiation of Bacterial DNA Replication  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

The Initiation of Bacterial DNA The Initiation of Bacterial DNA Replication The Initiation of Bacterial DNA Replication Print Wednesday, 31 January 2007 00:00 For the first time, scientists have determined the structure of the initiator of bacterial DNA replication. It is already known that such replication is controlled by a protein known as DnaA, a member of the AAA+ superfamily of ATPases. What has now been discovered is that the core of the initiator is not the closed-ring structure expected for this system. Instead, DnaA forms an open right-handed helix. In addition, the architecture indicates that this AAA+ superhelix will wrap coils of the DNA around its exterior, causing the DNA double helix to deform as a first step in the separation and unwinding of its strands. Eukaryotic and archaeal initiators also have the structural elements that promote open-helix formation, indicating that a spiral, open-ring AAA+ assembly is a conserved element from a common evolutionary ancestor of Archaea, Bacteria, and Eukarya.

455

Application of a Downhole Flowmeter to Detecting Casing Breaks in a Geothermal Well  

SciTech Connect (OSTI)

The downhole flowmeter logging system for high temperature geothermal wells developed at Wairakei, New Zealand, is proving to be an invaluable tool for use during workovers to repair or reinstate problem wells. This contribution describes a straightforward example of identifying breaks in plain casing near the top of a productive well.

Syms, Margot C.; Syms, Peter H.; Bixley, Paul F.

1980-12-16T23:59:59.000Z

456

$U_A(1)$ Symmetry Breaking and the Scalar Sector of QCD  

E-Print Network [OSTI]

It is shown that most of the unusual properties of the lowest lying scalar (and pseudoscalar) mesons can be understood, at the qualitative and quantitative level, on the basis of the breakdown of the $U_A(1)$ symmetry coupled to the vacuum expectation values of scalars by the spontaneous breaking of chiral symmetry.

Mauro Napsuciale; Simon Rodriguez

2002-04-12T23:59:59.000Z

457

Breaking the Deadlock: The 2000 Election, the Constitution and the Courts  

Science Journals Connector (OSTI)

......2002. L aw, Probability and Risk (2002) 1, 53-65 Breaking...given to the literature in political science and economics. The...it to the White House. The political manoeuvring, especially in...their liability capped at their insurance coverage). See also E ILPERIN......

Joseph L. Gastwirth

2002-07-01T23:59:59.000Z

458

A BreakEven Formulation for Evaluating Branch Predictor Energy Efficiency #  

E-Print Network [OSTI]

A Break­Even Formulation for Evaluating Branch Predictor Energy Efficiency # Michele Co, Dee A demonstrated that a better branch pre­ dictor can increase the energy­efficiency of the system, even if the new a simple, effective metric for eval­ uating the tradeoff between processor energy­efficiency and branch

Co, Michele

459

Observation of the Ankle and Evidence for a High-Energy Break in the Cosmic Ray  

E-Print Network [OSTI]

Observation of the Ankle and Evidence for a High-Energy Break in the Cosmic Ray Spectrum R known as "the ankle" near 3 Ã? 1018 eV, and strong evidence for a supression near 6 Ã? 1019 eV. 1

460

Role of global warming on the statistics of record-breaking temperatures S. Redner1,  

E-Print Network [OSTI]

Role of global warming on the statistics of record-breaking temperatures S. Redner1, * and Mark R in Philadelphia, as a function of the number of years of observation. We then consider the case of global warming question arises: is global warming the cause of such heat waves or are they merely statistical fluctuations

Redner, Sidney

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


461

Electronic Heating at High Bias in Atomic-Scale Au Break Junctions Ruoyu Chen,1  

E-Print Network [OSTI]

, U.S.A. Heating in nanoscale systems driven out of equilibrium is of fundamental importance, has O-10 Electronic Heating at High Bias in Atomic-Scale Au Break Junctions Ruoyu Chen,1, Texas, U.S.A. 2 Department of Electrical and Computer Engineering, Rice University, Houston, Texas 77005

462

Symmetry Breaking and Branching Constraints C. Mears, M. Garcia de la Banda, M. Wallace, B. Demoen  

E-Print Network [OSTI]

Background We begin with some preliminary definitions. Through- out this paper, a CSP is defined as a triple a CSP's solutions into equivalence classes. A symmetry breaking method is correct if it finds at least to the CSP). One way to dynamically exclude symmetric parts of

Aloul, Fadi

463

American Institute of Aeronautics and Astronautics Sharp Interface LES of Breaking Waves by an Interface  

E-Print Network [OSTI]

. Several numerical tests are conducted in order to validate the code. Wave breaking around a wedge, efficient and robust CFD tool with high order numerical schemes, simple code modules and structures-set based ghost fluid method is adopted for sharp interface treatment and a volume-of-fluid method

Yang, Jianming

464

Winery waste makes fuel Electricity, bacteria break organics in wastewater into hydrogen gas  

E-Print Network [OSTI]

MSNBC.com Winery waste makes fuel Electricity, bacteria break organics in wastewater into hydrogen method for generating hydrogen fuel from wastewater is now operating at a California winery material in the wastewater into hydrogen gas. There is a lot more energy locked in the wastewater than

465

Bubble entrainment by breaking waves and their influence on optical scattering in the upper ocean  

E-Print Network [OSTI]

Bubble entrainment by breaking waves and their influence on optical scattering in the upper ocean's surface inject bubbles and turbulence into the water column. During periods of rough weather the scales and the turbulent transport of bubbles to depth. Depending on their concentrations and size distribution

Stramski, Dariusz

466

Bubble-induced dissipation under unsteady breaking waves M. Derakhti1,2  

E-Print Network [OSTI]

Bubble-induced dissipation under unsteady breaking waves M. Derakhti1,2 and J. T. Kirby1 1 Center in bubbles that rapidly evolves into a distribution of bubble sizes, which interacts with fluid turbulence and organized motions. The liquid-bubble interaction, especially in the complex two-phase bubbly flow under

Kirby, James T.

467

Mathematical model and simulation of gas ow through a porous medium in high breaking capacity  

E-Print Network [OSTI]

Mathematical model and simulation of gas #29;ow through a porous medium in high breaking capacity, France. Abstract. A one-dimensional model is introduced to describe the gas #29;ow and the heat transfer model coupled with a porous medium model taking into account the mechanical interaction gas-silica sand

Sart, Remi

468

Mass Spectrometry and Density Functional Theory Characterizations of DNA Modifications  

E-Print Network [OSTI]

to fully characterize synthetic DNA bearing cisplatin cross-in the hydrolysis of synthetic DNA as part of the MS-basedlink yield from synthetic DNA harboring 5-X-pyrimidines,

Williams, Renee Therese

2012-01-01T23:59:59.000Z

469

Stabilizing synthetic data in the DNA of living organisms  

Science Journals Connector (OSTI)

Data-encoding synthetic DNA, inserted into the genome of a living ... generations, one of the merits of using DNA material is long-term data storage within ... broken by mutation, deletion, and insertion of DNA, ...

Nozomu Yachie; Yoshiaki Ohashi; Masaru Tomita

2008-06-01T23:59:59.000Z

470

Single-molecule studies of DNA dynamics and intermolecular forces  

E-Print Network [OSTI]

in relating DNA solutions to synthetic polymer melts. In any?x or ?y. DNA and numerous synthetic polymer solutions havethe other hand, DNA differs from many synthetic polymers in

Robertson, Rae Marie

2007-01-01T23:59:59.000Z

471

Mechanism of Interaction of CC-1065 (NSC 298223) with DNA  

Science Journals Connector (OSTI)

...interaction of CC-1065 with synthetic DNA polymers indicated a specificity...interaction of CC-1065 with synthetic DNA polymers indicated a specificity...interaction of CC-1065 with synthetic DNA polymers indicated a specificity...

David H. Swenson; Li H. Li; Laurence H. Hurley; J. Stefan Rokem; Gary L. Petzold; Brian D. Dayton; Tanya L. Wallace; Alice H. Lin; William C. Krueger

1982-07-01T23:59:59.000Z

472

Mass Spectrometry and Density Functional Theory Characterizations of DNA Modifications  

E-Print Network [OSTI]

link yield from synthetic DNA harboring 5-X-pyrimidines,dU- and Br dC-containing synthetic DNA were reported, it wasthe phosphoramidites into synthetic DNA at a 5’-CpG-3’ site;

Williams, Renee Therese

2012-01-01T23:59:59.000Z

473

Electric DNA chips for determination of pathogenic microorganisms  

E-Print Network [OSTI]

Electric DNA chips for determination of pathogenic microorganisms Yanling Liu Doctoral thesis Liu (2008): Electric DNA chips for determination of pathogenic microorganisms. School of Biotechnology, Royal Institute of Technology (KTH), Stockholm, Sweden Abstract Silicon-based electric DNA chip arrays

Enfors, Sven-Olof

474

Single molecule analysis of DNA electrophoresis in microdevices  

E-Print Network [OSTI]

Given that current electrophoresis technology is inadequate for mapping large O[100 kilobasepair] DNA, several promising lab-on-chip designs for DNA mapping have been recently proposed that require either 1) a DNA molecule ...

Randall, Greg C

2006-01-01T23:59:59.000Z

475

Mitochondrial DNA phylogenetic analysis of Myrmecolacidae (Insecta: Strepsiptera) va  

E-Print Network [OSTI]

Guinea are determined. Methods were developed for extraction, amplification, and sequencing of mitochondrial DNA (mtDNA) from Strepsiptera. High-resolution mtDNA sequences obtained by these methods were used in the phylogenetic analysis of Myrmecolacidae...

Halbert, Natalie Rose

2013-02-22T23:59:59.000Z

476

Allosteric Modulation of DNA by Small Molecules  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Allosteric Modulation of DNA by Small Allosteric Modulation of DNA by Small Molecules Signals originating at the cell surface are conveyed by a complex system of interconnected signaling pathways to the nucleus. They converge at transcription factors, which in turn regulate the transcription of sets of genes that result in the gene expression. Many human diseases are caused by dysregulated gene expression and the oversupply of transcription factors may be required for the growth and metastatic behavior of human cancers. Cell permeable small molecules that can be programmed to disrupt transcription factor-DNA interfaces could silence aberrant gene expression pathways. Pyrrole-imidazole polyamides are DNA minor groove binding small molecules that are programmable for a large repertoire of DNA motifs.

477

DNA nanotechnology: understanding and optimisation through simulation  

E-Print Network [OSTI]

DNA nanotechnology promises to provide controllable self-assembly on the nanoscale, allowing for the design of static structures, dynamic machines and computational architectures. In this article I review the state-of-the art of DNA nanotechnology, highlighting the need for a more detailed understanding of the key processes, both in terms of theoretical modelling and experimental characterisation. I then consider coarse-grained models of DNA, mesoscale descriptions that have the potential to provide great insight into the operation of DNA nanotechnology if they are well designed. In particular, I discuss a number of nanotechnological systems that have been studied with oxDNA, a recently developed coarse-grained model, highlighting the subtle interplay of kinetic, thermodynamic and mechanical factors that can determine behaviour. Finally, new results highlighting the importance of mechanical tension in the operation of a two-footed walker are presented, demonstrating that recovery from an unintended `overstepp...

Ouldridge, Thomas E

2014-01-01T23:59:59.000Z

478

Crystal Structure of the Chromodomain Helicase DNA-binding Protein 1 (Chd1) DNA-binding Domain in Complex with DNA  

SciTech Connect (OSTI)

Chromatin remodelers are ATP-dependent machines that dynamically alter the chromatin packaging of eukaryotic genomes by assembling, sliding, and displacing nucleosomes. The Chd1 chromatin remodeler possesses a C-terminal DNA-binding domain that is required for efficient nucleosome sliding and believed to be essential for sensing the length of DNA flanking the nucleosome core. The structure of the Chd1 DNA-binding domain was recently shown to consist of a SANT and SLIDE domain, analogous to the DNA-binding domain of the ISWI family, yet the details of how Chd1 recognized DNA were not known. Here we present the crystal structure of the Saccharomyces cerevisiae Chd1 DNA-binding domain in complex with a DNA duplex. The bound DNA duplex is straight, consistent with the preference exhibited by the Chd1 DNA-binding domain for extranucleosomal DNA. Comparison of this structure with the recently solved ISW1a DNA-binding domain bound to DNA reveals that DNA lays across each protein at a distinct angle, yet contacts similar surfaces on the SANT and SLIDE domains. In contrast to the minor groove binding seen for Isw1 and predicted for Chd1, the SLIDE domain of the Chd1 DNA-binding domain contacts the DNA major groove. The majority of direct contacts with the phosphate backbone occur only on one DNA strand, suggesting that Chd1 may not strongly discriminate between major and minor grooves.

Sharma A.; Heroux A.; Jenkins K. R.; Bowman G. D.

2011-12-09T23:59:59.000Z

479

A high-order adaptive time-stepping TVD solver for Boussinesq modeling of breaking waves and coastal inundation  

E-Print Network [OSTI]

A high-order adaptive time-stepping TVD solver for Boussinesq modeling of breaking waves December 2011 Available online 17 December 2011 Keywords: Boussinesq wave model TVD Riemann solver Breaking for the fully nonlinear Boussinesq model of Chen (2006), extended to include moving reference level

Kirby, James T.

480

A Spar Buoy for High-Frequency Wave Measurements and Detection of Wave Breaking in the Open Ocean  

Science Journals Connector (OSTI)

Waves and wave breaking play a significant role in the air–sea exchanges of momentum, sea spray aerosols, and trace gases such as CO2, but few direct measurements of wave breaking have been obtained in the open ocean (far from the coast). This ...

Robin W. Pascal; Margaret J. Yelland; Meric A. Srokosz; Bengamin I. Moat; Edward M. Waugh; Daniel H. Comben; Alex G. Cansdale; Mark C. Hartman; David G. H. Coles; Ping Chang Hsueh; Timothy G. Leighton

2011-04-01T23:59:59.000Z

Note: This page contains sample records for the topic "dna double-strand breaks" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


481

Hydrogen Bond Networks: Structure and Evolution after Hydrogen Bond Breaking John B. Asbury, Tobias Steinel, and M. D. Fayer*  

E-Print Network [OSTI]

Hydrogen Bond Networks: Structure and Evolution after Hydrogen Bond Breaking John B. Asbury, TobiasVed: September 1, 2003; In Final Form: December 18, 2003 The nature of hydrogen bonding networks following hydrogen bond breaking is investigated using vibrational echo correlation spectroscopy of the hydroxyl

Fayer, Michael D.

482

Staining Slides with Sybr Green Aime M. Dudley  

E-Print Network [OSTI]

Staining Slides with Sybr Green Aimée M. Dudley Sybr Green I is a double-stranded DNA dye slides at room temperature over 0.3 M potassium phosphate 30 min. 2. UV cross link on setting 1 large volumes of ddH2O 8. Wash 7 min. in Hexane 9. Scan Slide on Sybr Green protocol (Laser #4, Filter

Dudley, Aimee

483

Constraint of DNA on Functionalized Graphene Improves Its Biostability...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Constraint of DNA on Functionalized Graphene Improves Its Biostability and Specificity. Constraint of DNA on Functionalized Graphene Improves Its Biostability and Specificity....

484

Minor Groove Deformability of DNA: A Molecular Dynamics Free...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Minor Groove Deformability of DNA: A Molecular Dynamics Free EnergySimulation Study. Minor Groove Deformability of DNA: A Molecular Dynamics Free EnergySimulation Study. Abstract:...

485

Electrochemical Branched-DNA Assay for Polymerase Chain Reaction...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Branched-DNA Assay for Polymerase Chain Reaction-Free Detection and Quantification of Oncogenes in Messenger RNA Electrochemical Branched-DNA Assay for Polymerase Chain...

486

Isolation of Discrete Nanoparticle-DNA Conjugates for Plasmonic Applications  

E-Print Network [OSTI]

Isolation of Discrete Nanoparticle-DNA Conjugates forABSTRACT. Discrete DNA-gold nanoparticle conjugates with DNABG_Keywords”). GOLD, NANOPARTICLE, NANOCRYSTAL, PLASMON,

Claridge, Shelley

2008-01-01T23:59:59.000Z

487

Unidirectional Scaffold-Strand Arrangement in DNA Origami  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Unidirectional Scaffold-Strand Arrangement in DNA Origami Authors: Han, D., Jiang, S., Samanta, A., Liu, Y., and Yan, H. Title: Unidirectional Scaffold-Strand Arrangement in DNA...

488

Single molecule studies of DNA packaging by bacteriophages  

E-Print Network [OSTI]

for the study of single molecule protein- DNA interactions.Physics Studies in Single Molecule Biophysics ProfessorOF THE DISSERTATION Single Molecule Studies of DNA Packaging

Fuller, Derek Nathan

2008-01-01T23:59:59.000Z

489

The Initiation of Bacterial DNA Replication  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

The Initiation of Bacterial DNA Replication Print The Initiation of Bacterial DNA Replication Print For the first time, scientists have determined the structure of the initiator of bacterial DNA replication. It is already known that such replication is controlled by a protein known as DnaA, a member of the AAA+ superfamily of ATPases. What has now been discovered is that the core of the initiator is not the closed-ring structure expected for this system. Instead, DnaA forms an open right-handed helix. In addition, the architecture indicates that this AAA+ superhelix will wrap coils of the DNA around its exterior, causing the DNA double helix to deform as a first step in the separation and unwinding of its strands. Eukaryotic and archaeal initiators also have the structural elements that promote open-helix formation, indicating that a spiral, open-ring AAA+ assembly is a conserved element from a common evolutionary ancestor of Archaea, Bacteria, and Eukarya.

490

DNA hydration studied by neutron fiber diffraction  

SciTech Connect (OSTI)

The development of neutron high angle fiber diffraction to investigate the location of water around the deoxyribonucleic acid (DNA) double-helix is described. The power of the technique is illustrated by its application to the D and A conformations of DNA using the single crystal diffractometer, D19, at the Institute Laue-Langevin, Grenoble and the time of flight diffractometer, SXD, at the Rutherford Appleton ISIS Spallation Neutron Source. These studies show the existence of bound water closely associated with the DNA. The patterns of hydration in these two DNA conformations are quite distinct and are compared to those observed in X-ray single crystal studies of two-stranded oligodeoxynucleotides. Information on the location of water around the DNA double-helix from the neutron fiber diffraction studies is combined with that on the location of alkali metal cations from complementary X-ray high angle fiber diffraction studies at the Daresbury Laboratory SRS using synchrotron radiation. These analyses emphasize the importance of viewing DNA, water and ions as a single system with specific interactions between the three components and provide a basis for understanding the effect of changes in the concentration of water and ions in inducing conformations] transitions in the DNA double-helix.

Fuller, W.; Forsyth, V.T.; Mahendrasingam, A.; Langan, P.; Pigram, W.J. [Keele Univ. (United Kingdom)] [and others

1994-12-31T23:59:59.000Z

491

DNA DAMAGE QUANTITATION BY ALKALINE GEL ELECTROPHORESIS.  

SciTech Connect (OSTI)

Physical and chemical agents in the environment, those used in clinical applications, or encountered during recreational exposures to sunlight, induce damages in DNA. Understanding the biological impact of these agents requires quantitation of the levels of such damages in laboratory test systems as well as in field or clinical samples. Alkaline gel electrophoresis provides a sensitive (down to {approx} a few lesions/5Mb), rapid method of direct quantitation of a wide variety of DNA damages in nanogram quantities of non-radioactive DNAs from laboratory, field, or clinical specimens, including higher plants and animals. This method stems from velocity sedimentation studies of DNA populations, and from the simple methods of agarose gel electrophoresis. Our laboratories have developed quantitative agarose gel methods, analytical descriptions of DNA migration during electrophoresis on agarose gels (1-6), and electronic imaging for accurate determinations of DNA mass (7-9). Although all these components improve sensitivity and throughput of large numbers of samples (7,8,10), a simple version using only standard molecular biology equipment allows routine analysis of DNA damages at moderate frequencies. We present here a description of the methods, as well as a brief description of the underlying principles, required for a simplified approach to quantitation of DNA damages by alkaline gel electrophoresis.

SUTHERLAND,B.M.; BENNETT,P.V.; SUTHERLAND, J.C.

2004-03-24T23:59:59.000Z

492

The Initiation of Bacterial DNA Replication  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

The Initiation of Bacterial DNA Replication Print The Initiation of Bacterial DNA Replication Print For the first time, scientists have determined the structure of the initiator of bacterial DNA replication. It is already known that such replication is controlled by a protein known as DnaA, a member of the AAA+ superfamily of ATPases. What has now been discovered is that the core of the initiator is not the closed-ring structure expected for this system. Instead, DnaA forms an open right-handed helix. In addition, the architecture indicates that this AAA+ superhelix will wrap coils of the DNA around its exterior, causing the DNA double helix to deform as a first step in the separation and unwinding of its strands. Eukaryotic and archaeal initiators also have the structural elements that promote open-helix formation, indicating that a spiral, open-ring AAA+ assembly is a conserved element from a common evolutionary ancestor of Archaea, Bacteria, and Eukarya.

493

Laser mass spectrometry for DNA sequencing, disease diagnosis, and fingerprinting  

SciTech Connect (OSTI)

Since laser mass spectrometry has the potential for achieving very fast DNA analysis, the authors recently applied it to DNA sequencing, DNA typing for fingerprinting, and DNA screening for disease diagnosis. Two different approaches for sequencing DNA have been successfully demonstrated. One is to sequence DNA with DNA ladders produced from Snager`s enzymatic method. The other is to do direct sequencing without DNA ladders. The need for quick DNA typing for identification purposes is critical for forensic application. The preliminary results indicate laser mass spectrometry can possibly be used for rapid DNA fingerprinting applications at a much lower cost than gel electrophoresis. Population screening for certain genetic disease can be a very efficient step to reducing medical costs through prevention. Since laser mass spectrometry can provide very fast DNA analysis, the authors applied laser mass spectrometry to disease diagnosis. Clinical samples with both base deletion and point mutation have been tested with complete success.

Winston Chen, C.H.; Taranenko, N.I.; Zhu, Y.F.; Chung, C.N.; Allman, S.L.

1997-03-01T23:59:59.000Z

494

DNA fragment sizing and sorting by laser-induced fluorescence  

DOE Patents [OSTI]

A method is provided for sizing DNA fragments using high speed detection systems, such as flow cytometry to determine unique characteristics of DNA pieces from a sample. In one characterization the DNA piece is fragmented at preselected sites to produce a plurality of DNA fragments. The DNA piece or the resulting DNA fragments are treated with a dye effective to stain stoichiometrically the DNA piece or the DNA fragments. The fluorescence from the dye in the stained fragments is then examined to generate an output functionally related to the number of nucleotides in each one of the DNA fragments. In one embodiment, the intensity of the fluorescence emissions from each fragment is linearly related to the fragment length. The distribution of DNA fragment sizes forms a characterization of the DNA piece for use in forensic and research applications.

Hammond, Mark L. (Angier, NC); Jett, James H. (Los Alamos, NM); Keller, Richard A. (Los Alamos, NM); Marrone, Babetta L. (Los Alamos, NM); Martin, John C. (Los Alamos, NM)

1996-01-01T23:59:59.000Z

495

Sequential addition of short DNA oligos in DNA-polymerase-based synthesis reactions  

DOE Patents [OSTI]

A method of preselecting a multiplicity of DNA sequence segments that will comprise the DNA molecule of user-defined sequence, separating the DNA sequence segments temporally, and combining the multiplicity of DNA sequence segments with at least one polymerase enzyme wherein the multiplicity of DNA sequence segments join to produce the DNA molecule of user-defined sequence. Sequence segments may be of length n, where n is an odd integer. In one embodiment the length of desired hybridizing overlap is specified by the user and the sequences and the protocol for combining them are guided by computational (bioinformatics) predictions. In one embodiment sequence segments are combined from multiple reading frames to span the same region of a sequence, so that multiple desired hybridizations may occur with different overlap lengths.

Gardner, Shea N; Mariella, Jr., Raymond P; Christian, Allen T; Young, Jennifer A; Clague, David S

2013-06-25T23:59:59.000Z

496

Gravity currents with tailwaters in Boussinesq and non-Boussinesq systems: two-layer shallow-water dam-break solutions and Navier–Stokes simulations  

Science Journals Connector (OSTI)

We consider the dam-break initial stage of propagation of a gravity current of density $$\\rho _{c}$$ ...

M. Ungarish; Z. Borden; E. Meiburg

2014-04-01T23:59:59.000Z

497

Break-Even Cost for Residential Photovoltaics in the United States: Key Drivers and Sensitivities  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

09 09 December 2009 Break-Even Cost for Residential Photovoltaics in the United States: Key Drivers and Sensitivities Paul Denholm, Robert M. Margolis, Sean Ong, and Billy Roberts National Renewable Energy Laboratory 1617 Cole Boulevard, Golden, Colorado 80401-3393 303-275-3000 * www.nrel.gov NREL is a national laboratory of the U.S. Department of Energy Office of Energy Efficiency and Renewable Energy Operated by the Alliance for Sustainable Energy, LLC Contract No. DE-AC36-08-GO28308 Technical Report NREL/TP-6A2-46909 December 2009 Break-Even Cost for Residential Photovoltaics in the United States: Key Drivers and Sensitivities Paul Denholm, Robert M. Margolis, Sean Ong, and Billy Roberts Prepared under Task No. PVD9.1210 NOTICE This report was prepared as an account of work sponsored by an agency of the United States government.

498

Symmetry-breaking mechanism for the Z4 general-covariant evolution system  

Science Journals Connector (OSTI)

The general-covariant Z4 formalism is further analyzed. The gauge conditions are generalized with a view to numerical relativity applications and the conditions for obtaining strongly hyperbolic evolution systems are given both at the first and the second order levels. A symmetry-breaking mechanism is proposed that allows one, when applied in a partial way, to recover previously proposed strongly hyperbolic formalisms, like the BSSN and the Bona-Massó formulas. When applied in its full form, the symmetry-breaking mechanism allows one to recover the full five-parameter family of first order KST systems. Numerical codes based in the proposed formalisms are tested. A robust stability test is provided by evolving random noise data around Minkowski space-time. A strong field test is provided by the collapse of a periodic background of plane gravitational waves, as described by the Gowdy metric.

C. Bona; T. Ledvinka; C. Palenzuela; M. Žá?ek

2004-03-26T23:59:59.000Z

499

Deformation and break-up of viscoelastic droplets Using Lattice Boltzmann Models  

E-Print Network [OSTI]

We investigate the break-up of Newtonian/viscoelastic droplets in a viscoelastic/Newtonian matrix under the hydrodynamic conditions of a confined shear flow. Our numerical approach is based on a combination of Lattice-Boltzmann models (LBM) and Finite Difference (FD) schemes. LBM are used to model two immiscible fluids with variable viscosity ratio (i.e. the ratio of the droplet to matrix viscosity); FD schemes are used to model viscoelasticity, and the kinetics of the polymers is introduced using constitutive equations for viscoelastic fluids with finitely extensible non-linear elastic dumbbells with Peterlin's closure (FENE-P). We study both strongly and weakly confined cases to highlight the role of matrix and droplet viscoelasticity in changing the droplet dynamics after the startup of a shear flow. Simulations provide easy access to quantities such as droplet deformation and orientation and will be used to quantitatively predict the critical Capillary number at which the droplet breaks, the latter being ...

Gupta, Anupam

2014-01-01T23:59:59.000Z

500

Electroweak Symmetry Breaking and the Higgs Boson: Confronting Theories at Colliders  

E-Print Network [OSTI]

In this review, we discuss methods of parsing direct and indirect information from collider experiments regarding the Higgs boson and describe simple ways in which experimental likelihoods can be consistently reconstructed and interfaced with model predictions in pertinent parameter spaces. Ultimately these methods are used to constrain a five-dimensional parameter space describing a model-independent framework for electroweak symmetry breaking. We review prevalent scenarios for extending the electroweak symmetry breaking sector relative to the Standard Model and emphasize their predictions for nonstandard Higgs phenomenology that could be observed in LHC data if naturalness is realized in particular ways. Specifically we identify how measurements of Higgs couplings can be used to imply the existence of new physics at particular scales within various contexts, highlighting some parameter spaces of interest in order to give examples of how the data surrounding the new state can most effectively be used to constrain specific models of weak scale physics.

Aleksandr Azatov; Jamison Galloway

2012-12-06T23:59:59.000Z