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WO2002088381A3 - Verfahren zur bestimmung der genexpression - Google Patents

Verfahren zur bestimmung der genexpression Download PDF

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Publication number
WO2002088381A3
WO2002088381A3 PCT/EP2002/004657 EP0204657W WO02088381A3 WO 2002088381 A3 WO2002088381 A3 WO 2002088381A3 EP 0204657 W EP0204657 W EP 0204657W WO 02088381 A3 WO02088381 A3 WO 02088381A3
Authority
WO
WIPO (PCT)
Prior art keywords
gene expression
expression
determining gene
genes
large number
Prior art date
Legal status (The legal status 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 status listed.)
Ceased
Application number
PCT/EP2002/004657
Other languages
English (en)
French (fr)
Other versions
WO2002088381A2 (de
Inventor
Dmitri Tcherkassov
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Genovoxx GmbH
Original Assignee
Genovoxx GmbH
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 filed Critical Genovoxx GmbH
Priority to AU2002312859A priority Critical patent/AU2002312859A1/en
Publication of WO2002088381A2 publication Critical patent/WO2002088381A2/de
Anticipated expiration legal-status Critical
Publication of WO2002088381A3 publication Critical patent/WO2002088381A3/de
Ceased legal-status Critical Current

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    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B20/00—Methods specially adapted for identifying library members
    • C40B20/02—Identifying library members by their fixed physical location on a support or substrate
    • 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
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B30/00—Methods of screening libraries
    • C40B30/10—Methods of screening libraries by measuring physical properties, e.g. mass
    • 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
    • C40B40/08—Libraries containing RNA or DNA which encodes proteins, e.g. gene libraries

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  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Medicinal Chemistry (AREA)
  • General Chemical & Material Sciences (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Analytical Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Microbiology (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Die Erfindung betrifft ein Verfahren zur Analyse der Genexpression, d.h. zur parallelen Analyse der Expression einer grossen Anzahl von Genen. Die Methode basiert auf der Analyse von Sequenzen an vielen gebundenen Nukleinsäureketten. Dazu werden kurze Sequenzabschnitte aus jeder dieser Ketten ermittelt. Die anschliessende Auswertung und der Vergleich mit Gensequenzen in Datenbanken erlaubt Aussagen über die exprimierten Gene und die Stärke ihrer Expression.
PCT/EP2002/004657 2001-04-27 2002-04-26 Verfahren zur bestimmung der genexpression Ceased WO2002088381A2 (de)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2002312859A AU2002312859A1 (en) 2001-04-27 2002-04-26 Method for determining gene expression

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
DE10120798A DE10120798B4 (de) 2001-04-27 2001-04-27 Verfahren zur Bestimmung der Genexpression
DE10120798.0 2001-04-27

Publications (2)

Publication Number Publication Date
WO2002088381A2 WO2002088381A2 (de) 2002-11-07
WO2002088381A3 true WO2002088381A3 (de) 2003-11-27

Family

ID=7683015

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/EP2002/004657 Ceased WO2002088381A2 (de) 2001-04-27 2002-04-26 Verfahren zur bestimmung der genexpression

Country Status (3)

Country Link
AU (1) AU2002312859A1 (de)
DE (1) DE10120798B4 (de)
WO (1) WO2002088381A2 (de)

Cited By (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7297518B2 (en) 2001-03-12 2007-11-20 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences by asynchronous base extension
US7541444B2 (en) 2002-08-23 2009-06-02 Illumina Cambridge Limited Modified nucleotides
US7566537B2 (en) 2001-12-04 2009-07-28 Illumina Cambridge Limited Labelled nucleotides
US7592435B2 (en) 2005-08-19 2009-09-22 Illumina Cambridge Limited Modified nucleosides and nucleotides and uses thereof
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
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
US9175342B2 (en) 2007-10-19 2015-11-03 The Trustees Of Columbia University In The City Of New York Synthesis of cleavable fluorescent nucleotides as reversible terminators for DNA sequencing by synthesis
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

Families Citing this family (19)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6780591B2 (en) 1998-05-01 2004-08-24 Arizona Board Of Regents Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
US6818395B1 (en) 1999-06-28 2004-11-16 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences
US7501245B2 (en) 1999-06-28 2009-03-10 Helicos Biosciences Corp. Methods and apparatuses for analyzing polynucleotide sequences
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
WO2003031947A2 (de) * 2001-10-04 2003-04-17 Genovoxx Gmbh Gerät zur sequenzierung von nukleinsäuremolekülen
EP1340818A1 (de) * 2002-02-27 2003-09-03 Epigenomics AG Verfahren und Nukleinsäuren zur Analyse von Kolonkrebszellen
US11008359B2 (en) 2002-08-23 2021-05-18 Illumina Cambridge Limited Labelled nucleotides
US7169560B2 (en) 2003-11-12 2007-01-30 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
DE602005020421D1 (de) 2004-02-19 2010-05-20 Helicos Biosciences Corp Verfahren zur analyse von polynukleotidsequenzen
DE602005027700D1 (de) 2004-05-25 2011-06-09 Helicos Biosciences Corp Verfahren zur nukleinsäureimmobilisierung
US7476734B2 (en) 2005-12-06 2009-01-13 Helicos Biosciences Corporation Nucleotide analogs
US7220549B2 (en) 2004-12-30 2007-05-22 Helicos Biosciences Corporation Stabilizing a nucleic acid for nucleic acid sequencing
US7482120B2 (en) 2005-01-28 2009-01-27 Helicos Biosciences Corporation Methods and compositions for improving fidelity in a nucleic acid synthesis reaction
US7666593B2 (en) 2005-08-26 2010-02-23 Helicos Biosciences Corporation Single molecule sequencing of captured nucleic acids
US7397546B2 (en) 2006-03-08 2008-07-08 Helicos Biosciences Corporation Systems and methods for reducing detected intensity non-uniformity in a laser beam
WO2009124255A2 (en) * 2008-04-04 2009-10-08 Helicos Biosciences Corporation Methods for transcript analysis
WO2014139596A1 (en) 2013-03-15 2014-09-18 Illumina Cambridge Limited Modified nucleosides or nucleotides
US10648026B2 (en) 2013-03-15 2020-05-12 The Trustees Of Columbia University In The City Of New York Raman cluster tagged molecules for biological imaging
GB201414098D0 (en) 2014-08-08 2014-09-24 Illumina Cambridge Ltd Modified nucleotide linkers

Citations (7)

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US4772691A (en) * 1985-06-05 1988-09-20 The Medical College Of Wisconsin, Inc. Chemically cleavable nucleotides
WO1996017957A1 (en) * 1994-12-09 1996-06-13 Hyseq, Inc. Methods and apparatus for dna sequencing and dna identification
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US6632655B1 (en) * 1999-02-23 2003-10-14 Caliper Technologies Corp. Manipulation of microparticles in microfluidic systems
US6309836B1 (en) * 1999-10-05 2001-10-30 Marek Kwiatkowski Compounds for protecting hydroxyls and methods for their use

Patent Citations (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4772691A (en) * 1985-06-05 1988-09-20 The Medical College Of Wisconsin, Inc. Chemically cleavable nucleotides
US5547839A (en) * 1989-06-07 1996-08-20 Affymax Technologies N.V. Sequencing of surface immobilized polymers utilizing microflourescence detection
US5614617A (en) * 1990-07-27 1997-03-25 Isis Pharmaceuticals, Inc. Nuclease resistant, pyrimidine modified oligonucleotides that detect and modulate gene expression
WO1996017957A1 (en) * 1994-12-09 1996-06-13 Hyseq, Inc. Methods and apparatus for dna sequencing and dna identification
WO1998051699A1 (en) * 1997-05-12 1998-11-19 Life Technologies, Inc. Methods for production and purification of nucleic acid molecules
WO2000070073A1 (en) * 1999-05-19 2000-11-23 Cornell Research Foundation, Inc. Method for sequencing nucleic acid molecules
WO2001016375A2 (en) * 1999-08-30 2001-03-08 The Government Of The United States Of America, As Represented By The Secretary, Department Of Health And Human Services High speed parallel molecular nucleic acid sequencing

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LOMANT A J ET AL: "Chemical probes of extended biological structures: synthesis and properties of the cleavable protein cross-linking reagent [35S]dithiobis(succinimidyl propionate).", JOURNAL OF MOLECULAR BIOLOGY. ENGLAND 14 JUN 1976, vol. 104, no. 1, 14 June 1976 (1976-06-14), pages 243 - 261, XP009012241, ISSN: 0022-2836 *
SHIMKUS M ET AL: "A chemically cleavable biotinylated nucleotide: usefulness in the recovery of protein-DNA complexes from avidin affinity columns.", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. UNITED STATES MAY 1985, vol. 82, no. 9, May 1985 (1985-05-01), pages 2593 - 2597, XP009012256, ISSN: 0027-8424 *
SHIMKUS M L ET AL: "SYNTHESIS AND CHARACTERIZATION OF BIOTIN-LABELED NUCLEOTIDE ANALOGS", DNA (NEW YORK), vol. 5, no. 3, 1986, pages 247 - 256, XP009012255, ISSN: 0198-0238 *
SOUKUP G A ET AL: "Preparation of oligonucleotide-biotin conjugates with cleavable linkers.", BIOCONJUGATE CHEMISTRY. UNITED STATES 1995 JAN-FEB, vol. 6, no. 1, January 1995 (1995-01-01), pages 135 - 138, XP002246344, ISSN: 1043-1802 *
UENO Y ET AL: "NUCLEOSIDES AND NUCLEOTIDES. 165. CHEMICAL LIGATION OF OLIGODEOXYNUCLEOTIDES HAVING A MERCAPTO GROUP AT THE 5-POSITION OF 2'-DEOXYURIDINE VIA A DISULFIDE BOND", NUCLEOSIDES & NUCLEOTIDES, MARCEL DEKKER, INC, US, vol. 17, no. 1-3, 1998, pages 283 - 289, XP001149079, ISSN: 0732-8311 *

Cited By (17)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
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
US7297518B2 (en) 2001-03-12 2007-11-20 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences by asynchronous base extension
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
US9121062B2 (en) 2001-12-04 2015-09-01 Illumina Cambridge Limited Labelled nucleotides
US7566537B2 (en) 2001-12-04 2009-07-28 Illumina Cambridge Limited Labelled nucleotides
US9127314B2 (en) 2002-08-23 2015-09-08 Illumina Cambridge Limited Labelled nucleotides
US9388464B2 (en) 2002-08-23 2016-07-12 Illumina Cambridge Limited Modified nucleotides
US9121060B2 (en) 2002-08-23 2015-09-01 Illumina Cambridge Limited Modified nucleotides
US9410199B2 (en) 2002-08-23 2016-08-09 Illumina Cambridge Limited Labelled nucleotides
US7541444B2 (en) 2002-08-23 2009-06-02 Illumina Cambridge Limited Modified nucleotides
US7592435B2 (en) 2005-08-19 2009-09-22 Illumina Cambridge Limited Modified nucleosides and nucleotides and uses thereof
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
US9175342B2 (en) 2007-10-19 2015-11-03 The Trustees Of Columbia University In The City Of New York Synthesis of cleavable fluorescent nucleotides as reversible terminators for DNA sequencing by synthesis
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

Also Published As

Publication number Publication date
DE10120798A1 (de) 2002-12-19
WO2002088381A2 (de) 2002-11-07
DE10120798B4 (de) 2005-12-29
AU2002312859A1 (en) 2002-11-11

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