WO2002018655A3 - Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference - Google Patents

Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference Download PDF

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Publication number
WO2002018655A3
WO2002018655A3 PCT/US2001/027021 US0127021W WO0218655A3 WO 2002018655 A3 WO2002018655 A3 WO 2002018655A3 US 0127021 W US0127021 W US 0127021W WO 0218655 A3 WO0218655 A3 WO 0218655A3
Authority
WO
WIPO (PCT)
Prior art keywords
single stranded
compositions
generation
methods
stranded cdna
Prior art date
Application number
PCT/US2001/027021
Other languages
French (fr)
Other versions
WO2002018655A2 (en
Inventor
Wei Zhang
Limei Hu
Stanley R Hamilton
Original Assignee
Univ Texas
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Univ Texas filed Critical Univ Texas
Priority to AU2001286929A priority Critical patent/AU2001286929A1/en
Publication of WO2002018655A2 publication Critical patent/WO2002018655A2/en
Publication of WO2002018655A3 publication Critical patent/WO2002018655A3/en

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6851—Quantitative amplification
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277—Apparatus
    • B01J2219/00497—Features relating to the solid phase supports
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277—Apparatus
    • B01J2219/00497—Features relating to the solid phase supports
    • B01J2219/00527—Sheets
    • B01J2219/00529—DNA chips
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583—Features relative to the processes being carried out
    • B01J2219/00596—Solid-phase processes
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583—Features relative to the processes being carried out
    • B01J2219/00603—Making arrays on substantially continuous surfaces
    • B01J2219/00659—Two-dimensional arrays
    • B—PERFORMING OPERATIONS; TRANSPORTING
    • B01—PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01J—CHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00—Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274—Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00718—Type of compounds synthesised
    • B01J2219/0072—Organic compounds
    • B01J2219/00722—Nucleotides
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/04—Libraries containing only organic compounds
    • C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof

Abstract

Single stranded nucleic acid oligonucleotides are immobilized on a solid support to provide a DNA chip, or microarray of single stranded DNA immobilized on a solid support, for hybridizing oligonucleotides. A universal and quantitatively reproducible hybridization reference oligonucleotide is used for data normalization and for quality control of the array printing process.
PCT/US2001/027021 2000-09-01 2001-08-30 Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference WO2002018655A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2001286929A AU2001286929A1 (en) 2000-09-01 2001-08-30 Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US65444500A 2000-09-01 2000-09-01
US09/654,445 2000-09-01

Publications (2)

Publication Number Publication Date
WO2002018655A2 WO2002018655A2 (en) 2002-03-07
WO2002018655A3 true WO2002018655A3 (en) 2003-08-21

Family

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Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2001/027021 WO2002018655A2 (en) 2000-09-01 2001-08-30 Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference

Country Status (2)

Country Link
AU (1) AU2001286929A1 (en)
WO (1) WO2002018655A2 (en)

Families Citing this family (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7138506B2 (en) 2001-05-09 2006-11-21 Genetic Id, Na, Inc. Universal microarray system
KR100794698B1 (en) 2001-06-28 2008-01-14 (주)바이오니아 Quality control method for biological chip
WO2003080868A1 (en) * 2002-03-27 2003-10-02 Jae-Chern Yoo Bio-disc, bio-driver apparatus, and assay method using the same
US20040185445A1 (en) * 2003-03-19 2004-09-23 Ye Fang Universal readout for target identification using biological microarrays
US20040229226A1 (en) * 2003-05-16 2004-11-18 Reddy M. Parameswara Reducing microarray variation with internal reference spots
EP1748082A4 (en) * 2004-04-30 2008-08-13 Olympus Corp Method of analyzing nucleic acid
US8173367B2 (en) 2004-10-18 2012-05-08 Sherri Boucher In situ dilution of external controls for use in microarrays
US8014958B2 (en) * 2005-10-28 2011-09-06 Mitsubishi Rayon Co., Ltd. Method for confirming positions on which probes are immobilized in nucleic acid array
FR2894596B1 (en) * 2005-12-13 2012-08-10 Centre Nat Rech Scient PROCESS FOR AUTOCALIBRATION OF BIOPUCES
US9169515B2 (en) 2010-02-19 2015-10-27 Life Technologies Corporation Methods and systems for nucleic acid sequencing validation, calibration and normalization
GB201102385D0 (en) 2011-02-10 2011-03-30 Biocule Scotland Ltd Two-dimensional gel electrophoresis apparatus and method
CN103103623B (en) * 2013-03-01 2014-03-19 山东维真生物科技有限公司 Adenovirus chip

Citations (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1993017126A1 (en) * 1992-02-19 1993-09-02 The Public Health Research Institute Of The City Of New York, Inc. Novel oligonucleotide arrays and their use for sorting, isolating, sequencing, and manipulating nucleic acids
US5795714A (en) * 1992-11-06 1998-08-18 Trustees Of Boston University Method for replicating an array of nucleic acid probes
US5919626A (en) * 1997-06-06 1999-07-06 Orchid Bio Computer, Inc. Attachment of unmodified nucleic acids to silanized solid phase surfaces
US6013449A (en) * 1997-11-26 2000-01-11 The United States Of America As Represented By The Department Of Health And Human Services Probe-based analysis of heterozygous mutations using two-color labelling
WO2001042512A2 (en) * 1999-11-24 2001-06-14 Incyte Genomics, Inc. Normalization controls and duplex probes for quantitative hybridization reactions
WO2001071039A2 (en) * 2000-03-20 2001-09-27 Incyte Genomics, Inc. Combined polynucleotide sequences as discrete assay endpoints
EP1180548A2 (en) * 2000-07-31 2002-02-20 Agilent Technologies, Inc. Array based methods for synthesizing nucleic acid mixtures

Patent Citations (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1993017126A1 (en) * 1992-02-19 1993-09-02 The Public Health Research Institute Of The City Of New York, Inc. Novel oligonucleotide arrays and their use for sorting, isolating, sequencing, and manipulating nucleic acids
US5795714A (en) * 1992-11-06 1998-08-18 Trustees Of Boston University Method for replicating an array of nucleic acid probes
US5919626A (en) * 1997-06-06 1999-07-06 Orchid Bio Computer, Inc. Attachment of unmodified nucleic acids to silanized solid phase surfaces
US6013449A (en) * 1997-11-26 2000-01-11 The United States Of America As Represented By The Department Of Health And Human Services Probe-based analysis of heterozygous mutations using two-color labelling
WO2001042512A2 (en) * 1999-11-24 2001-06-14 Incyte Genomics, Inc. Normalization controls and duplex probes for quantitative hybridization reactions
WO2001071039A2 (en) * 2000-03-20 2001-09-27 Incyte Genomics, Inc. Combined polynucleotide sequences as discrete assay endpoints
EP1180548A2 (en) * 2000-07-31 2002-02-20 Agilent Technologies, Inc. Array based methods for synthesizing nucleic acid mixtures

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
BULYK M L ET AL: "Quantifying DNA-protein interactions by double-stranded DNA arrays", NATURE BIOTECHNOLOGY, NATURE PUBLISHING, US, vol. 17, June 1999 (1999-06-01), pages 573 - 577, XP002168458, ISSN: 1087-0156 *
DUGGAN D J ET AL: "EXPRESSION PROFILING USING CDNA MICROARRAYS", NATURE GENETICS, NEW YORK, NY, US, vol. 21, no. SUPPL, January 1999 (1999-01-01), pages 10 - 14, XP000865980, ISSN: 1061-4036 *

Also Published As

Publication number Publication date
WO2002018655A2 (en) 2002-03-07
AU2001286929A1 (en) 2002-03-13

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