WO2003020968A3 - Method for analyzing nucleic acid sequences and gene expression - Google Patents

Method for analyzing nucleic acid sequences and gene expression Download PDF

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Publication number
WO2003020968A3
WO2003020968A3 PCT/EP2002/009614 EP0209614W WO03020968A3 WO 2003020968 A3 WO2003020968 A3 WO 2003020968A3 EP 0209614 W EP0209614 W EP 0209614W WO 03020968 A3 WO03020968 A3 WO 03020968A3
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WO
WIPO (PCT)
Prior art keywords
nucleic acid
gene expression
acid sequences
analyzing nucleic
acid molecules
Prior art date
Application number
PCT/EP2002/009614
Other languages
German (de)
French (fr)
Other versions
WO2003020968A2 (en
Inventor
Dimitri Tcherkassov
Original Assignee
Genovoxx Gmbh
Dimitri Tcherkassov
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 Genovoxx Gmbh, Dimitri Tcherkassov filed Critical Genovoxx Gmbh
Priority to AU2002337030A priority Critical patent/AU2002337030A1/en
Publication of WO2003020968A2 publication Critical patent/WO2003020968A2/en
Publication of WO2003020968A3 publication Critical patent/WO2003020968A3/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
    • C12Q1/6869—Methods for sequencing
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation

Abstract

The invention relates to a method for analyzing nucleic acid sequences and gene expression. The method is based on the detection of fluorescence signals of nucleotide molecules inserted into growing nucleic acid chains by means of a polymerase. The reaction occurs on a plane surface, wherein a plurality of individual nucleic acid molecules are immobilized on said surface. All said nucleic acid molecules are exposed to the same conditions so that a build-up reaction can simultaneously take place in all nucleic acid molecules.
PCT/EP2002/009614 2001-08-29 2002-08-28 Method for analyzing nucleic acid sequences and gene expression WO2003020968A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2002337030A AU2002337030A1 (en) 2001-08-29 2002-08-28 Method for analyzing nucleic acid sequences and gene expression

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
DE10142256 2001-08-29
DE10142256.3 2001-08-29

Publications (2)

Publication Number Publication Date
WO2003020968A2 WO2003020968A2 (en) 2003-03-13
WO2003020968A3 true WO2003020968A3 (en) 2003-12-31

Family

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PCT/EP2002/009614 WO2003020968A2 (en) 2001-08-29 2002-08-28 Method for analyzing nucleic acid sequences and gene expression

Country Status (3)

Country Link
AU (1) AU2002337030A1 (en)
DE (1) DE10239504A1 (en)
WO (1) WO2003020968A2 (en)

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US8691754B2 (en) 2003-09-22 2014-04-08 Bioarray Solutions, Ltd. Microparticles with enhanced covalent binding capacity and their uses
US8691594B2 (en) 1996-04-25 2014-04-08 Bioarray Solutions, Ltd. Method of making a microbead array with attached biomolecules
US9012144B2 (en) 2003-11-12 2015-04-21 Fluidigm Corporation Short cycle methods for sequencing polynucleotides
US9115163B2 (en) 2007-10-19 2015-08-25 The Trustees Of Columbia University In The City Of New York DNA sequence with non-fluorescent nucleotide reversible terminators and cleavable label modified nucleotide terminators
US9121062B2 (en) 2001-12-04 2015-09-01 Illumina Cambridge Limited Labelled nucleotides
US9121060B2 (en) 2002-08-23 2015-09-01 Illumina Cambridge Limited Modified nucleotides
US9127314B2 (en) 2002-08-23 2015-09-08 Illumina Cambridge Limited Labelled nucleotides
US9133511B2 (en) 2000-10-06 2015-09-15 The Trustees Of Columbia University In The City Of New York Massive parallel method for decoding DNA and RNA
US9147037B2 (en) 2004-08-02 2015-09-29 Bioarray Solutions, Ltd. Automated analysis of multiplexed probe-target interaction patterns: pattern matching and allele identification
US9251583B2 (en) 2002-11-15 2016-02-02 Bioarray Solutions, Ltd. Analysis, secure access to, and transmission of array images
US9436088B2 (en) 2001-06-21 2016-09-06 Bioarray Solutions, Ltd. Un-supported polymeric film with embedded microbeads
US9469873B2 (en) 2006-09-28 2016-10-18 Illumina, Inc. Compositions and methods for nucleotide sequencing
US9528151B2 (en) 2006-12-01 2016-12-27 The Trustees Of Columbia University In The City Of New York Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators
US9540689B2 (en) 1998-05-01 2017-01-10 Life Technologies Corporation Method of determining the nucleotide sequence of oligonucleotides and DNA molecules

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US9709559B2 (en) 2000-06-21 2017-07-18 Bioarray Solutions, Ltd. Multianalyte molecular analysis using application-specific random particle arrays
US9708358B2 (en) 2000-10-06 2017-07-18 The Trustees Of Columbia University In The City Of New York Massive parallel method for decoding DNA and RNA
JP4377689B2 (en) 2001-10-15 2009-12-02 バイオアレイ ソリューションズ リミテッド Combined analysis of polymorphic loci with simultaneous interrogation and enzyme-mediated detection
US11008359B2 (en) 2002-08-23 2021-05-18 Illumina Cambridge Limited Labelled nucleotides
WO2005042763A2 (en) 2003-10-28 2005-05-12 Bioarray Solutions Ltd. Optimization of gene expression analysis using immobilized capture probes
EP1694859B1 (en) * 2003-10-29 2015-01-07 Bioarray Solutions Ltd Multiplexed nucleic acid analysis by fragmentation of double-stranded dna
EP1725572B1 (en) 2003-11-05 2017-05-31 AGCT GmbH Macromolecular nucleotide compounds and methods for using the same
WO2005080605A2 (en) * 2004-02-19 2005-09-01 Helicos Biosciences Corporation Methods and kits for analyzing polynucleotide sequences
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DE602005027700D1 (en) * 2004-05-25 2011-06-09 Helicos Biosciences Corp PROCESS FOR NUCLEIC ACID IMMOBILIZATION
WO2006097320A2 (en) 2005-03-17 2006-09-21 Genovoxx Gmbh Macromolecular nucleotide links and methods for their use
US7666593B2 (en) 2005-08-26 2010-02-23 Helicos Biosciences Corporation Single molecule sequencing of captured nucleic acids
US20070196832A1 (en) * 2006-02-22 2007-08-23 Efcavitch J William Methods for mutation detection
EP2366801B1 (en) 2006-06-14 2016-10-19 Verinata Health, Inc Methods for the diagnosis of fetal abnormalities
US20110014611A1 (en) 2007-10-19 2011-01-20 Jingyue Ju Design and synthesis of cleavable fluorescent nucleotides as reversible terminators for dna sequences by synthesis
US10174368B2 (en) 2009-09-10 2019-01-08 Centrillion Technology Holdings Corporation Methods and systems for sequencing long nucleic acids
WO2011032040A1 (en) 2009-09-10 2011-03-17 Centrillion Technology Holding Corporation Methods of targeted sequencing
JP2013509883A (en) 2009-11-06 2013-03-21 ザ ボード オブ トラスティーズ オブ ザ リーランド スタンフォード ジュニア ユニバーシティ Noninvasive diagnosis of graft rejection in organ transplant patients
JP6069224B2 (en) 2011-01-31 2017-02-01 アプライズ バイオ， インコーポレイテッド Methods for identifying multiple epitopes in a cell
US20120252682A1 (en) 2011-04-01 2012-10-04 Maples Corporate Services Limited Methods and systems for sequencing nucleic acids
AU2012335955A1 (en) 2011-11-07 2014-07-03 QIAGEN Redwood City, Inc. Methods and systems for identification of causal genomic variants
JP6525872B2 (en) 2012-08-08 2019-06-05 エフ．ホフマン−ラ ロシュ アーゲーＦ． Ｈｏｆｆｍａｎｎ−Ｌａ Ｒｏｃｈｅ Ａｋｔｉｅｎｇｅｓｅｌｌｓｃｈａｆｔ Increasing dynamic range to identify multiple epitopes in cells
AU2014212152B2 (en) 2013-02-01 2020-02-06 The Regents Of The University Of California Methods for genome assembly and haplotype phasing
US9411930B2 (en) 2013-02-01 2016-08-09 The Regents Of The University Of California Methods for genome assembly and haplotype phasing
WO2014144883A1 (en) 2013-03-15 2014-09-18 The Trustees Of Columbia University In The City Of New York Raman cluster tagged molecules for biological imaging
EP3388442A1 (en) 2013-03-15 2018-10-17 Illumina Cambridge Limited Modified nucleosides or nucleotides
EP3415626B1 (en) 2013-03-15 2020-01-22 Lineage Biosciences, Inc. Methods and compositions for tagging and analyzing samples
EP4130350A1 (en) 2013-11-07 2023-02-08 The Board of Trustees of the Leland Stanford Junior University Cell-free nucleic acids for the analysis of the human microbiome and components thereof
CA2933387C (en) 2013-12-11 2023-05-02 The Regents Of The University Of California Methods for labeling dna fragments to reconstruct physical linkage and phase
CA2956925C (en) 2014-08-01 2024-02-13 Dovetail Genomics, Llc Tagging nucleic acids for sequence assembly
CA2976902A1 (en) 2015-02-17 2016-08-25 Dovetail Genomics Llc Nucleic acid sequence assembly
GB2554572B (en) 2015-03-26 2021-06-23 Dovetail Genomics Llc Physical linkage preservation in DNA storage
AU2016341198B2 (en) 2015-10-19 2023-03-09 Dovetail Genomics, Llc Methods for genome assembly, haplotype phasing, and target independent nucleic acid detection
KR20180116377A (en) 2016-02-23 2018-10-24 더브테일 제노믹스 엘엘씨 Generation and Hexagonal Paging of a Paged Read Set for Genome Assemblies
EP3954771A1 (en) 2016-05-13 2022-02-16 Dovetail Genomics, LLC Recovering long-range linkage information from preserved samples
US20210371918A1 (en) 2017-04-18 2021-12-02 Dovetail Genomics, Llc Nucleic acid characteristics as guides for sequence assembly
US20200131506A1 (en) 2017-06-21 2020-04-30 Bluedot Llc Systems and methods for identification of nucleic acids in a sample
WO2019060716A1 (en) 2017-09-25 2019-03-28 Freenome Holdings, Inc. Methods and systems for sample extraction
WO2019152543A1 (en) 2018-01-31 2019-08-08 Dovetail Genomics, Llc Sample prep for dna linkage recovery
US11166996B2 (en) 2018-12-12 2021-11-09 Flagship Pioneering Innovations V, Inc. Anellovirus compositions and methods of use
CN110951852B (en) * 2019-11-25 2022-11-25 齐鲁工业大学 Single-base continuous extension flow type target sequencing method

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Cited By (19)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US8691594B2 (en) 1996-04-25 2014-04-08 Bioarray Solutions, Ltd. Method of making a microbead array with attached biomolecules
US9400259B2 (en) 1996-04-25 2016-07-26 Bioarray Solutions, Ltd. Method of making a microbead array with attached biomolecules
US9540689B2 (en) 1998-05-01 2017-01-10 Life Technologies Corporation Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
US9133511B2 (en) 2000-10-06 2015-09-15 The Trustees Of Columbia University In The City Of New York Massive parallel method for decoding DNA and RNA
US9436088B2 (en) 2001-06-21 2016-09-06 Bioarray Solutions, Ltd. Un-supported polymeric film with embedded microbeads
US9121062B2 (en) 2001-12-04 2015-09-01 Illumina Cambridge Limited Labelled nucleotides
US9410200B2 (en) 2001-12-04 2016-08-09 Illumina Cambridge Limited Labelled nucleotides
US9388463B2 (en) 2001-12-04 2016-07-12 Illumina Cambridge Limited Labelled nucleotides
US9410199B2 (en) 2002-08-23 2016-08-09 Illumina Cambridge Limited Labelled nucleotides
US9121060B2 (en) 2002-08-23 2015-09-01 Illumina Cambridge Limited Modified nucleotides
US9388464B2 (en) 2002-08-23 2016-07-12 Illumina Cambridge Limited Modified nucleotides
US9127314B2 (en) 2002-08-23 2015-09-08 Illumina Cambridge Limited Labelled nucleotides
US9251583B2 (en) 2002-11-15 2016-02-02 Bioarray Solutions, Ltd. Analysis, secure access to, and transmission of array images
US8691754B2 (en) 2003-09-22 2014-04-08 Bioarray Solutions, Ltd. Microparticles with enhanced covalent binding capacity and their uses
US9012144B2 (en) 2003-11-12 2015-04-21 Fluidigm Corporation Short cycle methods for sequencing polynucleotides
US9147037B2 (en) 2004-08-02 2015-09-29 Bioarray Solutions, Ltd. Automated analysis of multiplexed probe-target interaction patterns: pattern matching and allele identification
US9469873B2 (en) 2006-09-28 2016-10-18 Illumina, Inc. Compositions and methods for nucleotide sequencing
US9528151B2 (en) 2006-12-01 2016-12-27 The Trustees Of Columbia University In The City Of New York Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators
US9115163B2 (en) 2007-10-19 2015-08-25 The Trustees Of Columbia University In The City Of New York DNA sequence with non-fluorescent nucleotide reversible terminators and cleavable label modified nucleotide terminators

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AU2002337030A1 (en) 2003-03-18
DE10239504A1 (en) 2003-04-24
WO2003020968A2 (en) 2003-03-13

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