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
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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
Priority to US65444500A priority Critical
Priority to US09/654,445 priority
Application filed by Univ Texas filed Critical Univ Texas
Publication of WO2002018655A2 publication Critical patent/WO2002018655A2/en
Publication of WO2002018655A3 publication Critical patent/WO2002018655A3/en

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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844Nucleic acid amplification reactions
    • C12Q1/6851Quantitative amplification
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813Hybridisation assays
    • C12Q1/6834Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • BPERFORMING OPERATIONS; TRANSPORTING
    • B01PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01JCHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277Apparatus
    • B01J2219/00497Features relating to the solid phase supports
    • BPERFORMING OPERATIONS; TRANSPORTING
    • B01PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01JCHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00277Apparatus
    • B01J2219/00497Features relating to the solid phase supports
    • B01J2219/00527Sheets
    • B01J2219/00529DNA chips
    • BPERFORMING OPERATIONS; TRANSPORTING
    • B01PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01JCHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583Features relative to the processes being carried out
    • B01J2219/00596Solid-phase processes
    • BPERFORMING OPERATIONS; TRANSPORTING
    • B01PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01JCHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00583Features relative to the processes being carried out
    • B01J2219/00603Making arrays on substantially continuous surfaces
    • B01J2219/00659Two-dimensional arrays
    • BPERFORMING OPERATIONS; TRANSPORTING
    • B01PHYSICAL OR CHEMICAL PROCESSES OR APPARATUS IN GENERAL
    • B01JCHEMICAL OR PHYSICAL PROCESSES, e.g. CATALYSIS OR COLLOID CHEMISTRY; THEIR RELEVANT APPARATUS
    • B01J2219/00Chemical, physical or physico-chemical processes in general; Their relevant apparatus
    • B01J2219/00274Sequential or parallel reactions; Apparatus and devices for combinatorial chemistry or for making arrays; Chemical library technology
    • B01J2219/00718Type of compounds synthesised
    • B01J2219/0072Organic compounds
    • B01J2219/00722Nucleotides
    • CCHEMISTRY; METALLURGY
    • C40COMBINATORIAL CHEMISTRY
    • C40BCOMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES, IN SILICO LIBRARIES
    • C40B40/00Libraries per se, e.g. arrays, mixtures
    • C40B40/04Libraries containing only organic compounds
    • C40B40/06Libraries 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 (2)

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

Applications Claiming Priority (1)

Application Number Priority Date Filing Date Title
AU8692901A AU8692901A (en) 2000-09-01 2001-08-30 Compositions and methods for the generation of single stranded cdna microarrays with accurate universal quantitation reference

Publications (2)

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

Family

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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)

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AU (1) AU8692901A (en)
WO (1) WO2002018655A2 (en)

Families Citing this family (12)

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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
KR100830926B1 (en) * 2002-03-27 2008-05-22 유재천 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
JPWO2005106029A1 (en) * 2004-04-30 2008-03-13 オリンパス株式会社 The method of analysis Nucleic Acids
US8173367B2 (en) 2004-10-18 2012-05-08 Sherri Boucher In situ dilution of external controls for use in microarrays
CN101297199B (en) * 2005-10-28 2011-12-28 三菱丽阳株式会社 Probe mounting location confirmation method of nucleic acid arrays
FR2894596B1 (en) * 2005-12-13 2012-08-10 Centre Nat Rech Scient Method for self-calibration of biochips
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)

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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 *

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AU8692901A (en) 2002-03-13
WO2002018655A2 (en) 2002-03-07

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