- Molecular Cell, Volume 37 Supplemental Information
- BIOLOGY OF REPRODUCTION 77, 312319 (2007) Published online before print 9 May 2007.
- Objective sequence-based subfamily classifications of mouse homeodomains reflect their in vitro
- Cancer Cell A Transcriptional Signature and Common
- Compact, universal DNA microarrays to comprehensively determine transcription-factor
- Page 1 of 1 Systematic identification of mammalian regulatory motifs' target
- Page 1 of 11 2006-2008 The Brigham and Women's Hospital, Inc. and President and Fellows of
- A Motif Co-Occurrence Approach for Genome-Wide Prediction of
- Universal protein-binding microarrays for the comprehensive characterization of the DNA-binding
- Inferring condition-specific transcription factor function from DNA binding and gene expression data
- JOURNAL OF COMPUTATIONAL BIOLOGY Volume 15, Number 7, 2008
- NATURE METHODS | VOL.5 NO.4 | APRIL 2008 | 297 NEWS AND VIEWS
- 7 8 9 10 11 12 13 width of binding site (k)
- Distinguishing direct versus indirect transcription factorDNA interactions
- TRENDS in Genetics Vol.17 No.10 October 2001 http://tig.trends.com 0168-9525/01/$ see front matter 2001 Elsevier Science Ltd. All rights reserved.
- Materials and Methods for "Diversity and Complexity in DNA Recognition by Transcription Factors"
- An empirical framework for binary interactome Kavitha Venkatesan1,2,12,13, Jean-Francois Rual1,2,12,13, Alexei Vazquez1,3,4,13, Ulrich Stelzl5,6,13,
- DNA microarray technologies for measuring proteinDNA interactions
- UniPROBE, update 2011: expanded content and search tools in the online database of
- Notch and MAML-1 Complexation Do Not Detectably Alter the DNA Binding Specificity of the Transcription
- Transcriptional regulation and stabilization of leftright neuronal identity
- Logos for all motifs generated from each array design separately and from the combined array data. The combined array data are the final data.
- Manual, ver. 03/01/2008, for "PhylCRM_1.1" and the associated program
- High-resolution DNA-binding specificity analysis of yeast transcription factors
- Using protein design algorithms to understand the molecular basis of disease caused by proteinDNA
- Supplemental Materials: Materials and Methods
- Available online at www.sciencedirect.com Genomes and evolution: advances in deciphering the genomics of
- Systematic identification of mammalian regulatory motifs' target genes and functions
- Exploring the DNA-binding specificities of zinc fingers with DNA microarrays
- DOI: 10.1126/science.1195970 , 1571 (2011);331Science
- Published online 8 October 2008 Nucleic Acids Research, 2009, Vol. 37, Database issue D77D82 doi:10.1093/nar/gkn660
- Transcription is thought to operate in a digital (either on or off)
- Supplemental Experimental Procedures Analyzing the protein binding microarray (PBM) data
- Vol.95/4(2010)185246 Available online at www.sciencedirect.com
- Statistical performance plots show that a multiple motif model best captures the binding profiles for most TFs. Area under ROC curve plots comparing the
- Data and text mining Predicting the Binding Preference of Transcription Factors to In-
- Specific DNA-binding by Apicomplexan AP2 transcription factors
- Supporting Information De Silva et al. 10.1073/pnas.0801993105
- Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo
- Molecular Cell STAT3 Activation of miR-21 and miR-181b-1
- Additivity in proteinDNA interactions: how good an approximation is it?
- brief communications 478 | VOL.8 NO.6 | JUNE2011 | nature methods
- Molecular Cell Noncooperative Interactions between Transcription
- Variation in Homeodomain DNA Binding Revealed by High-Resolution Analysis
- Current Biology 21, 18, January 25, 2011 2011 Elsevier Ltd All rights reserved DOI 10.1016/j.cub.2010.12.021 LUX ARRHYTHMO Encodes a Nighttime
- Short-Term Calorie Restriction in Male Mice Feminizes Gene Expression and Alters Key Regulators of Conserved
- Genome-Wide Promoter Analysis of the SOX4 Transcriptional Network in Prostate Cancer Cells
- MOLECULAR AND CELLULAR BIOLOGY, Jan. 2009, p. 342356 Vol. 29, No. 2 0270-7306/09/$08.00 0 doi:10.1128/MCB.01213-08
- FUNCTIONAL TRENDS IN STRUCTURAL CLASSES OF THE DNA BINDING DOMAINS OF REGULATORY
- shuffled_Foxj3_prim_and_sec_combined_ic_trimmed shuffled_Foxk1_prim_and_sec_combined_ic_trimmed
- Supplementary Figure 5 Median Intensity (over identical control spots)
- Using a structural and logics systems approach to infer bHLHDNA binding specificity determinants
- 734 volume 27 number 8 AuGuST 2009 nature biotechnology S. japonicum and S. mansoni are >15 times the size of the protozoan
- The Vibrio harveyi master quorum-sensing regulator, LuxR, a TetR-type protein is both an activator and a repressor: DNA
- Supplementary material for "Variation in homeodomain DNA-binding revealed by high-resolution analysis of
- 10.1101/gr.6037607Access the most recent version at doi: published online Feb 23, 2007;Genome Res.
- BioMed Central Page 1 of 25
- POSTDOCTORAL FELLOWSHIPS IN BIOINFORMATICS The Park Laboratory
- Genome Biology 2003, 5:201 commentreviewsreportsdepositedresearchinteractionsinformationrefereedresearch
- 2002 Oxford University Press Nucleic Acids Research, 2002, Vol. 30, No. 5 12551261 Nucleotides of transcription factor binding sites exert
- Available online at www.sciencedirect.com Toward a systems-level understanding of developmental
- A Multiparameter Network Reveals Extensive Divergence between
- MODULEFINDER: A TOOL FOR COMPUTATIONAL DISCOVERY OF CIS REGULATORY MODULES
- Expression-Guided In Silico Evaluation of Candidate Cis Regulatory Codes
- NormalizedPBMIntensitySupplementary Figure 4 Distance of Binding Site from Glass Slide (nt)
- 856 NATURE |VOL 409 |15 FEBRUARY 2001 |www.nature.com Computational comparison of two draft
- 308 VOLUME 16 | NUMBER 3 | MARCH 2010 nature medicine l e t t e r S
- Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo
- Foxj3_prim_and_sec_combined_ic_trimmed Foxk1_prim_and_sec_combined_ic_trimmed
- A Statistical Model for Investigating Binding Probabilities of DNA Nucleotide Sequences Using Microarrays
- Genome Biology 2004, 5:331 commentreviewsreportsdepositedresearchinteractionsinformationrefereedresearch
- 457RESEARCH ARTICLE INTRODUCTION
- Genome Biology 2003, 5:201 commentreviewsreportsdepositedresearchinteractionsinformationrefereedresearch
- 0 200 400 600 800 1000 KD (nM)Apparent KD (mM)
- RESEARCH COMMUNICATION Precise temporal control of the
- NATURE BIOTECHNOLOGY VOL 17 JUNE 1999 http://biotech.nature.com 573 Sequence-specific DNA binding by proteins controls transcription1,
- Manual, ver. 03/01/2008, for "Lever_1.1", and the associated programs
- Fax +41 61 306 12 34 E-Mail karger@karger.ch
- brief communications nature methods | VOL.8 NO.8 | AUGUST2011 | 659
- Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism
- DOI: 10.1126/science.1209753 , 532 (2011);333Science
- RESEARCH Open Access Genome-wide functional annotation and
- nature biotechnology volume 29 number 6 june 2011 483 Yue Zhao & Gary D Stormo
- Using a structural and logics systems approach to infer bHLHDNA binding specificity determinants
- DOI: 10.1126/science.1203659 , 596 (2011);333Science
- Systems Biology 204: Biomolecular Engineering and Synthetic Biology
- IDENTIFICATION OF CELL CYCLE-REGULATED, PUTATIVE HYPHAL GENES IN CANDIDA ALBICANS
- United States Patent 6,548,021 Church , et al. April 15, 2003
- Non-DNA-binding cofactors enhance DNA-binding specificity of a transcriptional regulatory complex
- 2011NatureAmerica,Inc.Allrightsreserved. nature immunology aDVaNCE ONLINE PUBLICaTION
- nature genetics volume 34 may 2003 35 C. elegans ORFeome version 1.1
- Martha L. Bulyk, Ph.D. [pronunciation: BULL-ick] Associate Professor of Medicine and Pathology
- RELB C-Rel RELA p50 p52 DNA complex
- United States Patent 6,326,489 Church , et al. December 4, 2001
- INTRINSIC DISORDER WITHIN AND FLANKING THE DNA-BINDING DOMAINS OF HUMAN TRANSCRIPTION FACTORS
- Distant cis-regulatory elements in human skeletal muscle differentiation Rachel Patton McCord a,e,1
- Systematic exploration of synergistic drug pairs Murat Cokol1,2,
- ARTICLE doi:10.1038/nature10011 Controllability of complex networks
- RESEARCH ARTICLE 1457 Development 139, 1457-1466 (2012) doi:10.1242/dev.069005
- Collective Response of Human Populations to Large-Scale Emergencies
- The Author 2012. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com
- nature immunology VOLUME 13 NUMBER 1 JANUARY 2012 95 The transcription factor NF-B regulates a broad range of genes
- Identification of a Brucella spp. secreted effector specifically interacting with human small GTPase Rab2
- nATuRE CommunICATIons | 2:394 | DoI: 10.1038/ncomms1396 | www.nature.com/naturecommunications 2011 Macmillan Publishers Limited. All rights reserved.
- Systematic exploration of synergistic drug pairs Murat Cokol1,2,
- Lachke et al., 1 iSyTE: integrated Systems Tool for Eye gene discovery
- RESEARCH ARTICLE1164 INTRODUCTION
- Geographic Constraints on Social Network Groups Jukka-Pekka Onnela1
- IDENTIFICATION OF CELL CYCLE-REGULATED, PUTATIVE HYPHAL GENES IN CANDIDA ALBICANS
- RESEARCH Open Access Curated collection of yeast transcription factor
- Genome Analysis Reveals Interplay between 59UTR Introns and Nuclear mRNA Export for Secretory and
- Discovering the Targets of Drugs Via Computational
- INTRINSIC DISORDER WITHIN AND FLANKING THE DNA-BINDING DOMAINS OF HUMAN TRANSCRIPTION FACTORS
