Surface-bound, double-stranded DNA protein arrays

Title: 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:: Church, George M.; Bulyk, Martha L.

Issue Date:: 2003-04-15

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. 
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                    Church, George M., & Bulyk, Martha L. Surface-bound, double-stranded DNA protein arrays.  United States.

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                    Church, George M., and Bulyk, Martha L. Tue .  
        "Surface-bound, double-stranded DNA protein arrays".  United States.  https://www.osti.gov/servlets/purl/1531453.

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@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}

}

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Title: Surface-bound, double-stranded DNA protein arrays

Abstract

Citation Formats

Rapid method for detecting microorganisms patent, May 1986

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Computer-aided engineering system for design of sequence arrays and lithographic masks patent, November 1996

Composition, article and process for detecting a microorganism patent, February 1989

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Method for preselecting recombinant clones containing a specific nucleic acid sequence and subsequent transformation with preselected clones patent, January 1996

A rapid method for identifying bacterial enzymes. journal, August 1975

Detection of first generation environmental sourced microbes in an environmentally-derived sample patent, July 1995

Method and apparatus for imaging a sample on a device patent, November 1996

Optical and electrical methods and apparatus for molecule detection patent, August 1997

Fluorogenic assays for immediate confirmation of Escherichia coli. journal, January 1982

Methylumbelliferyl-beta-D-glucuronide-based medium for rapid isolation and identification of Escherichia coli. journal, January 1984

MPN miniaturized procedure for the enumeration of faecal enterococci in fresh and marine waters: The must procedure journal, April 1993

Wholly microfabricated biosensors and process for the manufacture and use thereof patent, April 1993

Surface-bound, unimolecular, double-stranded DNA patent, June 1998

Method for ATP extraction patent, April 1991

Method and apparatus for measuring binding affinity patent, June 1994

Test media for identifying and differentiating general coliforms and Escherichia coli bacteria patent, February 1995

Process and agent for testing the sensitivity of bacteria patent, November 1986

Comparison of fluorescent gentamicin-thallous-carbonate and KF streptococcal agars to enumerate enterococci and fecal streptococci in meats. journal, January 1993

Screening assay for the detection of DNA-binding molecules patent, April 1994

Method, reagents and apparatus for the rapid identification of Neisseria gonorrhoeae and Neisseria meningitidis patent, June 1980

Rapid process for detection coliform bacteria patent, March 1994

Hydrolyzable fluorescent substrates and analytical determinations using same patent, March 1989

Swimming-Associated Illness and Recreational Water Quality Criteria journal, February 1989

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

Impedance Monitoring of Bacterial Activity journal, February 1975

Methods of making single-stranded circular oligonucleotides patent, June 1995

Simplified Direct Plating Method for Enhanced Recovery of Escherichia coli in Food journal, November 1985

Immobilized molecular synthesis of systematically substituted compounds patent, June 1996

Gentamicin-Based Medium for the Isolation of Group D Streptococci and Application of the Medium to Water Analysis † journal, January 1978

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

Methods for making a device for concurrently processing multiple biological chip assays patent, August 1996

Nucleic acid probe, test kit and diagnostic and purification methods patent, July 1994

Detection of beta-glucuronidase in lactose-fermenting members of the family Enterobacteriaceae and its presence in bacterial urine cultures. journal, January 1984

Arrays of alternating nucleic acid fragments for hybridization arrays patent, March 1988

Very large scale immobilized polymer synthesis patent, June 1995

Mesoscale polynucleotide amplification devices patent, December 1996

Method of sequencing DNA patent, April 1995

Device, composition and method for identifying microorganisms patent, December 1978

Method for sequencing polynucleotides patent, April 1994

Imaging immunoassay detection system with background compensation and its use patent, March 1992

Bacterial Densities From Fermentation Tube Tests journal, April 1942

Observations on the Relative Constancy of Ammonia Production by Certain Bacteria: Studies in Bacterial Metabolism. X journal, November 1913

Screening Plate Method for Detection of Bacterial β-Glucuronidase journal, January 1973

Method for performing amplification of nucleic acid with two primers bound to a single solid support patent, June 1997

New medium for the simultaneous detection of total coliforms and Escherichia coli in water. journal, January 1993

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

Method of detecting nucleic acids patent, September 1998

Method and medium for use in detecting target microbes in situ in a specimen sample of a possibly contaminated material patent, May 1990

Method of measuring the number of eumycete cells patent, June 1987

Computer-aided engineering system for design of sequence arrays and lithographic masks patent, January 1997

Methods of DNA sequencing by hybridization based on optimizing concentration of matrix-bound oligonucleotide and device for carrying out same patent, September 1996

Synthesis and screening of immobilized oligonucleotide arrays patent, April 1996

Evaluation of a fluorogenic assay for detection of Escherichia coli in foods. journal, January 1984

Comparison of beta-glucuronidase-based substrate systems for identification of Escherichia coli. journal, January 1986

Sequence-directed DNA-binding molecules compositions and methods patent, November 1996

Surface-bound, unimolecular, double-stranded DNA patent, September 1996

Method for testing and identifying microorganisms patent, November 1980

Array of oligonucleotides on a solid substrate patent, August 1995

Methods of preparing probe array by hybridation patent, May 1997

Spatially-addressable immobilization of oligonucleotides and other biological polymers on surfaces patent, May 1995

A rapid fluorogenic method for the detection of Escherichia coli by the production of β-glucuronidase journal, May 1991

Fluorogenic selective and differential medium for isolation of fecal streptococci. journal, January 1983

Printing molecular library arrays using deprotection agents solely in the vapor phase patent, February 1997

Negative control media device and method for microbiologic biochemical tests patent, January 1981

Nucleic acid detection methods patent, May 1998

Selective growth medium for isolation of Mobiluncus from vaginal fluid patent, June 1989

Long oligonucleotide arrays patent, July 2009

Method for attachment of silylated molecules to glass surfaces patent, February 2009

Reactions on a solid surface patent, October 2010

Flow cells for high density array chips patent, October 2017

Method for immobilizing molecules onto surfaces patent, March 2010

Methods for sequencing a polynucleotide template patent, September 2017

Method for attachment of silylated molecules to glass surfaces patent, February 2009

Method for attachment of silylated molecules to glass surfaces patent, January 2009

Protein interaction difference mapping patent, March 2008

Rapid method for detecting microorganisms
patent, May 1986

Method for amplification of nucleic acids in solid media
patent, April 1997

Computer-aided engineering system for design of sequence arrays and lithographic masks
patent, November 1996

Composition, article and process for detecting a microorganism
patent, February 1989

A new simple medium for the detection of Enterococcus faecalis and Enterococcus faecium by measurement of conductance changes
journal, August 1993

Method for preselecting recombinant clones containing a specific nucleic acid sequence and subsequent transformation with preselected clones
patent, January 1996

A rapid method for identifying bacterial enzymes.
journal, August 1975

Detection of first generation environmental sourced microbes in an environmentally-derived sample
patent, July 1995

Method and apparatus for imaging a sample on a device
patent, November 1996

Optical and electrical methods and apparatus for molecule detection
patent, August 1997

Fluorogenic assays for immediate confirmation of Escherichia coli.
journal, January 1982

Methylumbelliferyl-beta-D-glucuronide-based medium for rapid isolation and identification of Escherichia coli.
journal, January 1984

MPN miniaturized procedure for the enumeration of faecal enterococci in fresh and marine waters: The must procedure
journal, April 1993

Wholly microfabricated biosensors and process for the manufacture and use thereof
patent, April 1993

Surface-bound, unimolecular, double-stranded DNA
patent, June 1998

Method for ATP extraction
patent, April 1991

Method and apparatus for measuring binding affinity
patent, June 1994

Test media for identifying and differentiating general coliforms and Escherichia coli bacteria
patent, February 1995

Process and agent for testing the sensitivity of bacteria
patent, November 1986

Comparison of fluorescent gentamicin-thallous-carbonate and KF streptococcal agars to enumerate enterococci and fecal streptococci in meats.
journal, January 1993

Screening assay for the detection of DNA-binding molecules
patent, April 1994

Method, reagents and apparatus for the rapid identification of Neisseria gonorrhoeae and Neisseria meningitidis
patent, June 1980

Rapid process for detection coliform bacteria
patent, March 1994

Hydrolyzable fluorescent substrates and analytical determinations using same
patent, March 1989

Swimming-Associated Illness and Recreational Water Quality Criteria
journal, February 1989

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

Impedance Monitoring of Bacterial Activity
journal, February 1975

Methods of making single-stranded circular oligonucleotides
patent, June 1995

Simplified Direct Plating Method for Enhanced Recovery of Escherichia coli in Food
journal, November 1985

Immobilized molecular synthesis of systematically substituted compounds
patent, June 1996

Gentamicin-Based Medium for the Isolation of Group D Streptococci and Application of the Medium to Water Analysis †
journal, January 1978

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

Methods for making a device for concurrently processing multiple biological chip assays
patent, August 1996

Nucleic acid probe, test kit and diagnostic and purification methods
patent, July 1994

Detection of beta-glucuronidase in lactose-fermenting members of the family Enterobacteriaceae and its presence in bacterial urine cultures.
journal, January 1984

Arrays of alternating nucleic acid fragments for hybridization arrays
patent, March 1988

Very large scale immobilized polymer synthesis
patent, June 1995

Mesoscale polynucleotide amplification devices
patent, December 1996

Method of sequencing DNA
patent, April 1995

Device, composition and method for identifying microorganisms
patent, December 1978

Method for sequencing polynucleotides
patent, April 1994

Imaging immunoassay detection system with background compensation and its use
patent, March 1992

Bacterial Densities From Fermentation Tube Tests
journal, April 1942

Observations on the Relative Constancy of Ammonia Production by Certain Bacteria: Studies in Bacterial Metabolism. X
journal, November 1913

Screening Plate Method for Detection of Bacterial β-Glucuronidase
journal, January 1973

Method for performing amplification of nucleic acid with two primers bound to a single solid support
patent, June 1997

New medium for the simultaneous detection of total coliforms and Escherichia coli in water.
journal, January 1993

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

Method of detecting nucleic acids
patent, September 1998

Method and medium for use in detecting target microbes in situ in a specimen sample of a possibly contaminated material
patent, May 1990

Method of measuring the number of eumycete cells
patent, June 1987

Computer-aided engineering system for design of sequence arrays and lithographic masks
patent, January 1997

Methods of DNA sequencing by hybridization based on optimizing concentration of matrix-bound oligonucleotide and device for carrying out same
patent, September 1996

Synthesis and screening of immobilized oligonucleotide arrays
patent, April 1996

Evaluation of a fluorogenic assay for detection of Escherichia coli in foods.
journal, January 1984

Comparison of beta-glucuronidase-based substrate systems for identification of Escherichia coli.
journal, January 1986

Sequence-directed DNA-binding molecules compositions and methods
patent, November 1996

Surface-bound, unimolecular, double-stranded DNA
patent, September 1996

Method for testing and identifying microorganisms
patent, November 1980

Array of oligonucleotides on a solid substrate
patent, August 1995

Methods of preparing probe array by hybridation
patent, May 1997

Spatially-addressable immobilization of oligonucleotides and other biological polymers on surfaces
patent, May 1995

A rapid fluorogenic method for the detection of Escherichia coli by the production of β-glucuronidase
journal, May 1991

Fluorogenic selective and differential medium for isolation of fecal streptococci.
journal, January 1983

Printing molecular library arrays using deprotection agents solely in the vapor phase
patent, February 1997

Negative control media device and method for microbiologic biochemical tests
patent, January 1981

Nucleic acid detection methods
patent, May 1998

Selective growth medium for isolation of Mobiluncus from vaginal fluid
patent, June 1989

Long oligonucleotide arrays
patent, July 2009

Method for attachment of silylated molecules to glass surfaces
patent, February 2009

Reactions on a solid surface
patent, October 2010

Flow cells for high density array chips
patent, October 2017

Method for immobilizing molecules onto surfaces
patent, March 2010

Methods for sequencing a polynucleotide template
patent, September 2017

Method for attachment of silylated molecules to glass surfaces
patent, February 2009

Method for attachment of silylated molecules to glass surfaces
patent, January 2009

Protein interaction difference mapping
patent, March 2008

Space efficient polymer sets
patent, September 2013

Long oligonucleotide arrays
patent, May 2006

Solid-phase reactions
patent, December 2007