Surface-bound, double-stranded DNA protein arrays
Abstract
The invention provides a synthetic array of surface-bound, bimolecular, double-stranded nucleic acid molecules, the array comprising a solid support and a plurality of bimolecular double-stranded nucleic acid molecule members, a member comprising a first nucleic acid strand linked to the solid support and a second nucleic acid strand which is substantially complementary to the first strand and complexed to the first strand by Watson-Crick base pairing, wherein for at least a portion of the members, each member comprises a recognition site within a nucleic acid sequence for a protein, wherein a recognition site within a nucleic acid sequence for a protein of a first member is different from a recognition site within a nucleic acid sequence for a protein of a second member and wherein a protein is bound to a member thereof.
- Inventors:
- Issue Date:
- Research Org.:
- Harvard College, Cambridge, MA (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1531453
- Patent Number(s):
- 6,548,021
- Application Number:
- 09/132,368
- Assignee:
- President and Fellows of Harvard College (Cambridge, MA)
- DOE Contract Number:
- FG02-87ER60565
- Resource Type:
- Patent
- Resource Relation:
- Patent File Date: 1998-08-11
- Country of Publication:
- United States
- Language:
- English
Citation Formats
Church, George M., and Bulyk, Martha L. Surface-bound, double-stranded DNA protein arrays. United States: N. p., 2003.
Web.
Church, George M., & Bulyk, Martha L. Surface-bound, double-stranded DNA protein arrays. United States.
Church, George M., and Bulyk, Martha L. Tue .
"Surface-bound, double-stranded DNA protein arrays". United States. https://www.osti.gov/servlets/purl/1531453.
@article{osti_1531453,
title = {Surface-bound, double-stranded DNA protein arrays},
author = {Church, George M. and Bulyk, Martha L.},
abstractNote = {The invention provides a synthetic array of surface-bound, bimolecular, double-stranded nucleic acid molecules, the array comprising a solid support and a plurality of bimolecular double-stranded nucleic acid molecule members, a member comprising a first nucleic acid strand linked to the solid support and a second nucleic acid strand which is substantially complementary to the first strand and complexed to the first strand by Watson-Crick base pairing, wherein for at least a portion of the members, each member comprises a recognition site within a nucleic acid sequence for a protein, wherein a recognition site within a nucleic acid sequence for a protein of a first member is different from a recognition site within a nucleic acid sequence for a protein of a second member and wherein a protein is bound to a member thereof.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2003},
month = {4}
}
Works referenced in this record:
Rapid method for detecting microorganisms
patent, May 1986
- Koumura, Ichiro; Kanou, Hideo; Okunishi, Masahiko
- US Patent Document 4,591,554
Method for amplification of nucleic acids in solid media
patent, April 1997
- Chetverin, Alexander B.; Chetverina, Helena Vladimirovna
- US Patent Document 5,616,478
Computer-aided engineering system for design of sequence arrays and lithographic masks
patent, November 1996
- Hubbell, Earl A.; Morris, MacDonald S.; Winkler, James L.
- US Patent Document 5,571,639
Composition, article and process for detecting a microorganism
patent, February 1989
- Smith, Jr., Robert E.; Fox, Eugene N.
- US Patent Document 4,803,162
A new simple medium for the detection of Enterococcus faecalis and Enterococcus faecium by measurement of conductance changes
journal, August 1993
- Gatti, Monica; Neviani, Erasmo
- Letters in Applied Microbiology, Vol. 17, Issue 2
Method for preselecting recombinant clones containing a specific nucleic acid sequence and subsequent transformation with preselected clones
patent, January 1996
- Ludwig, Linda B.
- US Patent Document 5,484,702
A rapid method for identifying bacterial enzymes.
journal, August 1975
- Maddocks, J. L.; Greenan, M. J.
- Journal of Clinical Pathology, Vol. 28, Issue 8
Detection of first generation environmental sourced microbes in an environmentally-derived sample
patent, July 1995
- Edberg, Stephen C.
- US Patent Document 5,429,933
Method and apparatus for imaging a sample on a device
patent, November 1996
- Trulson, Mark O.; Stern, David M.; Fiekowsky, Peter J.
- US Patent Document 5,578,832
Optical and electrical methods and apparatus for molecule detection
patent, August 1997
- Hollis, Mark A.; Ehrlich, Daniel J.; Murphy, R. Allen
- US Patent Document 5,653,939
Fluorogenic assays for immediate confirmation of Escherichia coli.
journal, January 1982
- Feng, P. C.; Hartman, P. A.
- Applied and Environmental Microbiology, Vol. 43, Issue 6
Methylumbelliferyl-beta-D-glucuronide-based medium for rapid isolation and identification of Escherichia coli.
journal, January 1984
- Trepeta, R. W.; Edberg, S. C.
- Journal of Clinical Microbiology, Vol. 19, Issue 2
MPN miniaturized procedure for the enumeration of faecal enterococci in fresh and marine waters: The must procedure
journal, April 1993
- Hernandez, J. F.; Pourcher, A. M.; Delattre, J. M.
- Water Research, Vol. 27, Issue 4
Wholly microfabricated biosensors and process for the manufacture and use thereof
patent, April 1993
- Cozzette, Stephen N.; Davis, Graham; Itak, Jeanne A.
- US Patent Document 5,200,051
Surface-bound, unimolecular, double-stranded DNA
patent, June 1998
- Lockhart, David J.; Vetter, Dirk; Diggelmann, Martin
- US Patent Document 5,770,722
Method for ATP extraction
patent, April 1991
- Simpson, William J.; Hammond, John M.
- US Patent Document 5,004,684
Method and apparatus for measuring binding affinity
patent, June 1994
- Fodor, Stephen; Mazzola, Laura T.
- US Patent Document 5,324,633
Test media for identifying and differentiating general coliforms and Escherichia coli bacteria
patent, February 1995
- Roth, Jonathan N.; Ferguson, Wilfred J.
- US Patent Document 5,393,662
Process and agent for testing the sensitivity of bacteria
patent, November 1986
- Kappner, Manfred; Metz, Harald
- US Patent Document 4,622,297
Comparison of fluorescent gentamicin-thallous-carbonate and KF streptococcal agars to enumerate enterococci and fecal streptococci in meats.
journal, January 1993
- Knudtson, L. M.; Hartman, P. A.
- Applied and Environmental Microbiology, Vol. 59, Issue 3
Screening assay for the detection of DNA-binding molecules
patent, April 1994
- Edwards, Cynthia A.; Cantor, Charles R.; Andrews, Beth M.
- US Patent Document 5,306,619
Method, reagents and apparatus for the rapid identification of Neisseria gonorrhoeae and Neisseria meningitidis
patent, June 1980
- D'Amato, Richard F.; Eriquez, Louis A.
- US Patent Document 4,208,480
Rapid process for detection coliform bacteria
patent, March 1994
- Berg, James D.
- US Patent Document 5,292,644
Hydrolyzable fluorescent substrates and analytical determinations using same
patent, March 1989
- Babb, Bruce E.; Belly, Robert T.; Scensny, Patricia M.
- US Patent Document 4,812,409
Swimming-Associated Illness and Recreational Water Quality Criteria
journal, February 1989
- Cabelli, V. J.
- Water Science and Technology, Vol. 21, Issue 2
A monoclonal anti-double-stranded DNA autoantibody binds to a 94-kDa cell-surface protein on various cell types via nucleosomes or a DNA-histone complex.
journal, June 1989
- Jacob, L.; Viard, J. P.; Allenet, B.
- Proceedings of the National Academy of Sciences, Vol. 86, Issue 12
Impedance Monitoring of Bacterial Activity
journal, February 1975
- Ur, A.; Brown, D. F. J.
- Journal of Medical Microbiology, Vol. 8, Issue 1
Methods of making single-stranded circular oligonucleotides
patent, June 1995
- Kool, Eric
- US Patent Document 5,426,180
Simplified Direct Plating Method for Enhanced Recovery of Escherichia coli in Food
journal, November 1985
- DamarÉ, J. M.; Campbell, D. F.; Johnston, R. W.
- Journal of Food Science, Vol. 50, Issue 6
Immobilized molecular synthesis of systematically substituted compounds
patent, June 1996
- Holmes, Christopher P.
- US Patent Document 5,527,681
Gentamicin-Based Medium for the Isolation of Group D Streptococci and Application of the Medium to Water Analysis †
journal, January 1978
- Donnelly, L. Scott; Hartman, Paul A.
- Applied and Environmental Microbiology, Vol. 35, Issue 3
National field evaluation of a defined substrate method for the simultaneous enumeration of total coliforms and Escherichia coli from drinking water: comparison with the standard multiple tube fermentation method.
journal, January 1988
- Edberg, S. C.; Allen, M. J.; Smith, D. B.
- Applied and Environmental Microbiology, Vol. 54, Issue 6
Methods for making a device for concurrently processing multiple biological chip assays
patent, August 1996
- Rava, Richard P.; Fodor, Stephen; Trulson, Mark O.
- US Patent Document 5,545,531
Nucleic acid probe, test kit and diagnostic and purification methods
patent, July 1994
- Warren, III, Harold C.; Findlay, John B.; King, Marlene M.
- US Patent Document 5,328,825
Detection of beta-glucuronidase in lactose-fermenting members of the family Enterobacteriaceae and its presence in bacterial urine cultures.
journal, January 1984
- Hansen, W.; Yourassowsky, E.
- Journal of Clinical Microbiology, Vol. 20, Issue 6
Arrays of alternating nucleic acid fragments for hybridization arrays
patent, March 1988
- Palva, Airi M.; Ranki, Tuula M.; Soderlund, Hans E.
- US Patent Document 4,731,325
Very large scale immobilized polymer synthesis
patent, June 1995
- Fodor, Stephen; Stryer, Lubert; Pirrung, Michael C.
- US Patent Document 5,424,186
Mesoscale polynucleotide amplification devices
patent, December 1996
- Wilding, Peter G.; Kricka, Larry J.
- US Patent Document 5,587,128
Device, composition and method for identifying microorganisms
patent, December 1978
- Bochner, Barry R.
- US Patent Document 4,129,483
Method for sequencing polynucleotides
patent, April 1994
- Cheeseman, Peter C.
- US Patent Document 5,302,509
Imaging immunoassay detection system with background compensation and its use
patent, March 1992
- Leaback, David H.
- US Patent Document 5,096,807
Bacterial Densities From Fermentation Tube Tests
journal, April 1942
- Jr., Harold A. Thomas
- Journal - American Water Works Association, Vol. 34, Issue 4
Observations on the Relative Constancy of Ammonia Production by Certain Bacteria: Studies in Bacterial Metabolism. X
journal, November 1913
- Kendall, A. I.; Day, A. A.; Walker, A. W.
- Journal of Infectious Diseases, Vol. 13, Issue 3
Screening Plate Method for Detection of Bacterial β-Glucuronidase
journal, January 1973
- Dahlén, Gunnar; Linde, Anders
- Applied Microbiology, Vol. 26, Issue 6
Method for performing amplification of nucleic acid with two primers bound to a single solid support
patent, June 1997
- Adams, Christopher P.; Kron, Stephen J.
- US Patent Document 5,641,658
New medium for the simultaneous detection of total coliforms and Escherichia coli in water.
journal, January 1993
- Brenner, K. P.; Rankin, C. C.; Roybal, Y. R.
- Applied and Environmental Microbiology, Vol. 59, Issue 11
Multi-domain DNA ligands bound to a solid matrix for protein and nucleic acid affinity chromatography and processing of solid-phase DNA
patent, August 1995
- Utermohlen, Joseph G.
- US Patent Document 5,437,976
Method of detecting nucleic acids
patent, September 1998
- Fodor, Stephen; Solas, Dennis W.; Dower, William J.
- US Patent Document 5,800,992
Method and medium for use in detecting target microbes in situ in a specimen sample of a possibly contaminated material
patent, May 1990
- Edberg, Stephen C.
- US Patent Document 4,925,789
Method of measuring the number of eumycete cells
patent, June 1987
- Kanou, Hideo; Kamata, Masahiro; Yamanaka, Shigeru
- US Patent Document 4,675,289
Computer-aided engineering system for design of sequence arrays and lithographic masks
patent, January 1997
- Hubbell, Earl A.; Lipshutz, Robert J.; Morris, MacDonald S.
- US Patent Document 5,593,839
Methods of DNA sequencing by hybridization based on optimizing concentration of matrix-bound oligonucleotide and device for carrying out same
patent, September 1996
- Khrapko, Konstaintin R.; Khorlin, Alexandr A.; Ivanov, Igor Borisovich
- US Patent Document 5,552,270
Synthesis and screening of immobilized oligonucleotide arrays
patent, April 1996
- Fodor, Stephen; Pirrung, Michael C.; Read, J. Leighton
- US Patent Document 5,510,270
Evaluation of a fluorogenic assay for detection of Escherichia coli in foods.
journal, January 1984
- Robison, B. J.
- Applied and Environmental Microbiology, Vol. 48, Issue 2
Comparison of beta-glucuronidase-based substrate systems for identification of Escherichia coli.
journal, January 1986
- Edberg, S. C.; Kontnick, C. M.
- Journal of Clinical Microbiology, Vol. 24, Issue 3
Sequence-directed DNA-binding molecules compositions and methods
patent, November 1996
- Edwards, Cynthia A.; Cantor, Charles R.; Andrews, Beth M.
- US Patent Document 5,578,444
Surface-bound, unimolecular, double-stranded DNA
patent, September 1996
- Lockhart, David J.; Vetter, Dirk; Diggelmann, Martin
- US Patent Document 5,556,752
Method for testing and identifying microorganisms
patent, November 1980
- Bochner, Barry R.
- US Patent Document 4,235,964
Array of oligonucleotides on a solid substrate
patent, August 1995
- Fodor, Stephen; Pirrung, Michael C.; Read, J. Leighton
- US Patent Document 5,445,934
Methods of preparing probe array by hybridation
patent, May 1997
- Cantor, Charles R.
- US Patent Document 5,631,134
Spatially-addressable immobilization of oligonucleotides and other biological polymers on surfaces
patent, May 1995
- McGall, Glenn H.; Fodor, Stephen; Sheldon, III, Edward L.
- US Patent Document 5,412,087
A rapid fluorogenic method for the detection of Escherichia coli by the production of β-glucuronidase
journal, May 1991
- Sarhan, H. R.; Foster, H. A.
- Journal of Applied Bacteriology, Vol. 70, Issue 5
Fluorogenic selective and differential medium for isolation of fecal streptococci.
journal, January 1983
- Littel, K. J.; Hartman, P. A.
- Applied and Environmental Microbiology, Vol. 45, Issue 2
Printing molecular library arrays using deprotection agents solely in the vapor phase
patent, February 1997
- Pease, R. Fabian; McGall, Glenn H.; Goldberg, Martin J.
- US Patent Document 5,599,695
Negative control media device and method for microbiologic biochemical tests
patent, January 1981
- Lund, Marlys E.
- US Patent Document 4,245,043
Nucleic acid detection methods
patent, May 1998
- Smith, Cassandra L.; Yaar, Ron; Szafranski, Przemyslaw
- US Patent Document 5,753,439
Selective growth medium for isolation of Mobiluncus from vaginal fluid
patent, June 1989
- Spiegel, Carol A.
- US Patent Document 4,837,154
Works referencing / citing this record:
Long oligonucleotide arrays
patent, July 2009
- Chenchik, Alex; Munishkin, Alexander; Simonenko, Peter Nikolayevich
- US Patent Document 7,556,919
Method for attachment of silylated molecules to glass surfaces
patent, February 2009
- Garimella, Viswanadham; Bernal, Yasmith
- US Patent Document 7,485,470
Reactions on a solid surface
patent, October 2010
- Neri, Bruce P.; Hall, Jeff G.; Lyamichev, Victor I.
- US Patent Document 7,820,387
Flow cells for high density array chips
patent, October 2017
- Peck, Bill James; Fuller, Mark; West, Daniel A.
- US Patent Document 9,803,239
Method for immobilizing molecules onto surfaces
patent, March 2010
- Garimella, Viswanadham
- US Patent Document 7,687,437
Methods for sequencing a polynucleotide template
patent, September 2017
- Swerdlow, Harold Philip
- US Patent Document 9,765,391
Method for attachment of silylated molecules to glass surfaces
patent, February 2009
- Garimella, Viswanadham; Bernal, Yasmith
- US Patent Document 7,485,469
Method for attachment of silylated molecules to glass surfaces
patent, January 2009
- Garimella, Viswanadham; Bernal, Yasmith
- US Patent Document 7,482,173
Protein interaction difference mapping
patent, March 2008
- Rich, Jr., William E.; Boschetti, Egisto; Lomas, Lee O.
- US Patent Document 7,348,184
Space efficient polymer sets
patent, September 2013
- Bulyk, Martha L.; Philippakis, Anthony A.; Estep, Preston Wayne
- US Patent Document 8,530,638
Long oligonucleotide arrays
patent, May 2006
- Chenchik, Alex; Munishkin, Alexander; Simonenko, Peter Nikolayevich
- US Patent Document 7,041,445
Solid-phase reactions
patent, December 2007
- Stevens, Priscilla Wilkins; Kelso, David M.; Lyamichev, Victor I.
- US Patent Document 7,303,869
Method for attachment of silylated molecules to glass surfaces
patent, November 2007
- Garimella, Viswanadham; Bernal, Yasmith
- US Patent Document 7,297,553
Molecular interaction assays on a solid surface
patent, April 2005
- Nelson, Bryce P.; Strother, Todd C.
- US Patent Document 6,878,523
Method for attachment of silylated molecules to glass surfaces
patent, January 2009
- Garimella, Viswanadham; Bernal, Yasmith
- US Patent Document 7,476,550