EP1461458A4 - Procedes multiplexes de detection de methylation - Google Patents

Procedes multiplexes de detection de methylation

Info

Publication number
EP1461458A4
EP1461458A4 EP02795731A EP02795731A EP1461458A4 EP 1461458 A4 EP1461458 A4 EP 1461458A4 EP 02795731 A EP02795731 A EP 02795731A EP 02795731 A EP02795731 A EP 02795731A EP 1461458 A4 EP1461458 A4 EP 1461458A4
Authority
EP
European Patent Office
Prior art keywords
detection methods
methylation detection
multiplexed
multiplexed methylation
methods
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.)
Withdrawn
Application number
EP02795731A
Other languages
German (de)
English (en)
Other versions
EP1461458A2 (fr
Inventor
Jian-Bing Fan
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.)
Illumina Inc
Original Assignee
Illumina Inc
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 Illumina Inc filed Critical Illumina Inc
Priority to EP07115172A priority Critical patent/EP1860200A1/fr
Publication of EP1461458A2 publication Critical patent/EP1461458A2/fr
Publication of EP1461458A4 publication Critical patent/EP1461458A4/fr
Withdrawn legal-status Critical Current

Links

Classifications

    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • 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
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/154—Methylation markers

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Pathology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
EP02795731A 2001-12-03 2002-12-03 Procedes multiplexes de detection de methylation Withdrawn EP1461458A4 (fr)

Priority Applications (1)

Application Number Priority Date Filing Date Title
EP07115172A EP1860200A1 (fr) 2001-12-03 2002-12-03 Procédés multiplexes de détection de methylation

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US33695801P 2001-12-03 2001-12-03
US336958P 2001-12-03
PCT/US2002/038672 WO2003048732A2 (fr) 2001-02-07 2002-12-03 Procedes multiplexes de detection de methylation

Related Child Applications (1)

Application Number Title Priority Date Filing Date
EP07115172A Division EP1860200A1 (fr) 2001-12-03 2002-12-03 Procédés multiplexes de détection de methylation

Publications (2)

Publication Number Publication Date
EP1461458A2 EP1461458A2 (fr) 2004-09-29
EP1461458A4 true EP1461458A4 (fr) 2005-10-26

Family

ID=32823667

Family Applications (1)

Application Number Title Priority Date Filing Date
EP02795731A Withdrawn EP1461458A4 (fr) 2001-12-03 2002-12-03 Procedes multiplexes de detection de methylation

Country Status (4)

Country Link
EP (1) EP1461458A4 (fr)
AU (1) AU2002360474A1 (fr)
CA (1) CA2467814A1 (fr)
WO (1) WO2003048732A2 (fr)

Families Citing this family (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7582420B2 (en) 2001-07-12 2009-09-01 Illumina, Inc. Multiplex nucleic acid reactions
US20110151438A9 (en) 2001-11-19 2011-06-23 Affymetrix, Inc. Methods of Analysis of Methylation
EP1860200A1 (fr) * 2001-12-03 2007-11-28 Illumina, Inc. Procédés multiplexes de détection de methylation
US8150626B2 (en) 2003-05-15 2012-04-03 Illumina, Inc. Methods and compositions for diagnosing lung cancer with specific DNA methylation patterns
US8150627B2 (en) 2003-05-15 2012-04-03 Illumina, Inc. Methods and compositions for diagnosing lung cancer with specific DNA methylation patterns
US7799525B2 (en) 2003-06-17 2010-09-21 Human Genetic Signatures Pty Ltd. Methods for genome amplification
DE602004018801D1 (de) 2003-09-04 2009-02-12 Human Genetic Signatures Pty Nukleinsäurenachweistest
US8168777B2 (en) 2004-04-29 2012-05-01 Human Genetic Signatures Pty. Ltd. Bisulphite reagent treatment of nucleic acid
CN101056883B (zh) 2004-09-10 2012-10-10 人类遗传标记控股有限公司 包括含有嵌入性假核苷酸(ipn)的嵌入性核酸(ina)的扩增阻断剂
NZ555620A (en) 2004-12-03 2008-08-29 Human Genetic Signatures Pty Methods for simplifying microbial nucleic acids by chemical modification of cytosines
EP1883707B1 (fr) 2005-05-26 2014-04-09 Human Genetic Signatures PTY Ltd Amplification par deplacement de brin isotherme utilisant des amorces contenant une base non reguliere
US7901882B2 (en) 2006-03-31 2011-03-08 Affymetrix, Inc. Analysis of methylation using nucleic acid arrays
US9017971B2 (en) 2008-11-05 2015-04-28 Stichting Sanquin Bloedvoorziening Means and methods for investigating nucleic acid sequences
US9732375B2 (en) 2011-09-07 2017-08-15 Human Genetic Signatures Pty. Ltd. Molecular detection assay using direct treatment with a bisulphite reagent
CN102559661B (zh) * 2012-01-18 2014-06-04 厦门基科生物科技有限公司 一种新型连接酶反应介导的扩增方法及用途

Citations (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0139489A2 (fr) * 1983-09-26 1985-05-02 Ortho Diagnostic Systems Inc. Méthode d'hybridation en sandwich pour la détection d'acides nucléiques
EP0238332A2 (fr) * 1986-03-19 1987-09-23 Cetus Corporation Méthode d'hybridation en phase liquide et trousse de réactifs pour détecter la présence de séquences d'acides nucléiques dans des échantillons
US5232829A (en) * 1989-09-29 1993-08-03 Hoffmann-La Roche Inc. Detection of chlamydia trachomatis by polymerase chain reaction using biotin labelled lina primers and capture probes
EP0614987A1 (fr) * 1993-02-26 1994-09-14 Becton, Dickinson and Company Test d'hybridation d'acide nucléique utilisant un écoulement à travers une membrane
US5387505A (en) * 1990-05-04 1995-02-07 Eastman Kodak Company Preparation and isolation of single-stranded biotinylated nucleic acids by heat avidin-biotin cleavage
WO1995025538A1 (fr) * 1994-03-18 1995-09-28 The General Hospital Corporation Methodes de detection de polymorphismes amplifies et clives des sites de restriction
WO1998004746A1 (fr) * 1996-07-31 1998-02-05 Mount Sinai School Of Medicine Of The City University Of New York Une methode d'amplification d'acide nucleique par ramification-extension: la ram
US5786146A (en) * 1996-06-03 1998-07-28 The Johns Hopkins University School Of Medicine Method of detection of methylated nucleic acid using agents which modify unmethylated cytosine and distinguishing modified methylated and non-methylated nucleic acids
US5849544A (en) * 1992-07-24 1998-12-15 University Of Australia Amplification and detection process
WO1998056952A1 (fr) * 1997-06-09 1998-12-17 University Of Southern California Methode de diagnostic du cancer basee sur des differences de methylation d'adn
WO1998059243A1 (fr) * 1997-06-24 1998-12-30 The Trustees Of Boston University Support pour streptavidine haute densite
WO1999001580A1 (fr) * 1997-07-03 1999-01-14 Case Western Reserve University Compositions et procedes de detection de dysfonctionnements d'empreinte genomique
WO2000026401A1 (fr) * 1998-11-03 2000-05-11 The Johns Hopkins University School Of Medicine AMPLIFICATION D'ILOTS CpG METHYLES (MCA)
WO2000070090A1 (fr) * 1999-05-14 2000-11-23 University Of Southern California Procede d'analyse a haut rendement de la methylation d'adn

Patent Citations (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0139489A2 (fr) * 1983-09-26 1985-05-02 Ortho Diagnostic Systems Inc. Méthode d'hybridation en sandwich pour la détection d'acides nucléiques
EP0238332A2 (fr) * 1986-03-19 1987-09-23 Cetus Corporation Méthode d'hybridation en phase liquide et trousse de réactifs pour détecter la présence de séquences d'acides nucléiques dans des échantillons
US5232829A (en) * 1989-09-29 1993-08-03 Hoffmann-La Roche Inc. Detection of chlamydia trachomatis by polymerase chain reaction using biotin labelled lina primers and capture probes
US5387505A (en) * 1990-05-04 1995-02-07 Eastman Kodak Company Preparation and isolation of single-stranded biotinylated nucleic acids by heat avidin-biotin cleavage
US5849544A (en) * 1992-07-24 1998-12-15 University Of Australia Amplification and detection process
EP0614987A1 (fr) * 1993-02-26 1994-09-14 Becton, Dickinson and Company Test d'hybridation d'acide nucléique utilisant un écoulement à travers une membrane
WO1995025538A1 (fr) * 1994-03-18 1995-09-28 The General Hospital Corporation Methodes de detection de polymorphismes amplifies et clives des sites de restriction
US6200756B1 (en) * 1996-06-03 2001-03-13 The Johns Hopkins University School Of Medicine Methods for identifying methylation patterns in a CpG-containing nucleic acid
US5786146A (en) * 1996-06-03 1998-07-28 The Johns Hopkins University School Of Medicine Method of detection of methylated nucleic acid using agents which modify unmethylated cytosine and distinguishing modified methylated and non-methylated nucleic acids
WO1998004746A1 (fr) * 1996-07-31 1998-02-05 Mount Sinai School Of Medicine Of The City University Of New York Une methode d'amplification d'acide nucleique par ramification-extension: la ram
WO1998056952A1 (fr) * 1997-06-09 1998-12-17 University Of Southern California Methode de diagnostic du cancer basee sur des differences de methylation d'adn
WO1998059243A1 (fr) * 1997-06-24 1998-12-30 The Trustees Of Boston University Support pour streptavidine haute densite
WO1999001580A1 (fr) * 1997-07-03 1999-01-14 Case Western Reserve University Compositions et procedes de detection de dysfonctionnements d'empreinte genomique
WO2000026401A1 (fr) * 1998-11-03 2000-05-11 The Johns Hopkins University School Of Medicine AMPLIFICATION D'ILOTS CpG METHYLES (MCA)
WO2000070090A1 (fr) * 1999-05-14 2000-11-23 University Of Southern California Procede d'analyse a haut rendement de la methylation d'adn

Non-Patent Citations (18)

* Cited by examiner, † Cited by third party
Title
BERG E S ET AL: "HYBRID PCR SEQUENCING: SEQUENCING OF PCR PRODUCTS USING A UNIVERSAL PRIMER", BIOTECHNIQUES, EATON PUBLISHING, NATICK, US, vol. 17, no. 5, 1 November 1994 (1994-11-01), pages 896,898,900 - 901, XP000474854, ISSN: 0736-6205 *
COSTELLO J F ET AL: "Abberant CpG-island methylation has non-random and tumour-type-specific patterns", NATURE GENETICS, NATURE AMERICA, NEW YORK, US, vol. 25, 1 February 2000 (2000-02-01), pages 132 - 138, XP002242654, ISSN: 1061-4036 *
COSTELLO J F ET AL: "METHYLATION MATTERS", JOURNAL OF MEDICAL GENETICS, LONDON, GB, vol. 38, no. 5, May 2001 (2001-05-01), pages 285 - 303, XP008018005 *
EADS C A ET AL: "MethyLight: a high-throughput assay to measure DNA methylation.", NUCLEIC ACIDS RESEARCH. 15 APR 2000, vol. 28, no. 8, 15 April 2000 (2000-04-15), pages E32, XP002249149, ISSN: 1362-4962 *
GONZALGO M L AND JONES P A: "Rapid quantification of methylation differences at specific sites using methylation-sensitive single nucleotide primer extension (Ms-SNuPE)", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 25, no. 12, 1997, pages 2529 - 2531, XP002106409, ISSN: 0305-1048 *
GONZALGO MARK L ET AL: "Quantitative methylation analysis using methylation-sensitive single-nucleotide primer extension (Ms-SNuPE)", METHODS (ORLANDO), vol. 27, no. 2, June 2002 (2002-06-01), pages 128 - 133, XP009052711, ISSN: 1046-2023 *
HAMMONS GEORGE J ET AL: "Specific site methylation in the 5'-flanking region of CYP1A2: Interindividual differences in human livers", LIFE SCIENCES, vol. 69, no. 7, 6 July 2001 (2001-07-06), pages 839 - 845, XP002326913, ISSN: 0024-3205 *
HAYASHIZAKI Y ET AL: "RESTRICTION LANDMARK GENOMIC SCANNING METHOD AND ITS VARIOUS APPLICATIONS", ELECTROPHORESIS, WEINHEIM, DE, vol. 14, no. 4, April 1993 (1993-04-01), pages 251 - 258, XP009035246, ISSN: 0173-0835 *
HERMAN J G ET AL: "METHYLATION-SPECIFIC PCR: A NOVEL PCR ASSAY FOR METHYLATION STATUS OF CPG ISLANDS", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE. WASHINGTON, US, vol. 93, 1 September 1996 (1996-09-01), pages 9821 - 9826, XP002910406, ISSN: 0027-8424 *
HUANG TIM HUI-MING ET AL: "Methylation profiling of CpG islands in human breast cancer cells", HUMAN MOLECULAR GENETICS, OXFORD UNIVERSITY PRESS, SURREY, GB, vol. 8, no. 3, March 1999 (1999-03-01), pages 459 - 470, XP002175857, ISSN: 0964-6906 *
KUPPUSWAMY M N ET AL: "SINGLE NUCLEOTIDE PRIMER EXTENSION TO DETECT GENETIC DISEASES: EXPERIMENTAL APPLICATION TO HEMOPHILIA B (FACTOR IX) AND CYSTIC FIBROSIS GENES", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE. WASHINGTON, US, vol. 88, no. 4, 15 February 1991 (1991-02-15), pages 1143 - 1147, XP000371662, ISSN: 0027-8424 *
LADNER D P ET AL: "Multiplex detection of hotspot mutations by rolling circle-enabled universal microarrays.", LABORATORY INVESTIGATION; A JOURNAL OF TECHNICAL METHODS AND PATHOLOGY. AUG 2001, vol. 81, no. 8, August 2001 (2001-08-01), pages 1079 - 1086, XP002326914, ISSN: 0023-6837 *
LIZARDI P M ET AL: "MUTATION DETECTION AND SINGLE-MOLECULE COUNTING USING ISOTHERMAL ROLLING-CIRCLE AMPLIFICATION", NATURE GENETICS, NEW YORK, NY, US, vol. 19, no. 3, July 1998 (1998-07-01), pages 225 - 232, XP000856939, ISSN: 1061-4036 *
OAKELEY E J: "DNA METHYLATION ANALYSIS: A REVIEW OF CURRENT METHODOLOGIES", PHARMACOLOGY AND THERAPEUTICS, ELSEVIER, GB, vol. 84, no. 3, 1999, pages 389 - 400, XP001029527, ISSN: 0163-7258 *
PROMMER M ET AL: "A GENOMIC SEQUENCING PROTOCOL THAT YIELDS A POSITIVE DISPLAY OF 5-METHYLCYTOSINE RESIDUES IN INDIVIDUAL DNA STRANDS", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE. WASHINGTON, US, vol. 89, March 1992 (1992-03-01), pages 1827 - 1831, XP009016394, ISSN: 0027-8424 *
TOYOTA MINORU ET AL: "Identification of differentially methylated sequences in colorectal cancer by methylated CpG island amplification", CANCER RESEARCH, AMERICAN ASSOCIATION FOR CANCER RESEARCH, BALTIMORE, MD, US, vol. 59, no. 10, 15 May 1999 (1999-05-15), pages 2307 - 2312, XP002211911, ISSN: 0008-5472 *
TRINH BINH N ET AL: "DNA methylation analysis by MethyLight technology", METHODS : A COMPANION TO METHODS IN ENZYMOLOGY, ACADEMIC PRESS INC., NEW YORK, NY, US, vol. 25, no. 4, December 2001 (2001-12-01), pages 456 - 462, XP002318911, ISSN: 1046-2023 *
YAN P S ET AL: "CpG island arrays: an application toward deciphering epigenetic signatures of breast cancer", CLINICAL CANCER RESEARCH, THE AMERICAN ASSOCIATION FOR CANCER RESEARCH, US, vol. 6, no. 4, April 2000 (2000-04-01), pages 1432 - 1438, XP002245955, ISSN: 1078-0432 *

Also Published As

Publication number Publication date
WO2003048732A2 (fr) 2003-06-12
WO2003048732A3 (fr) 2003-09-25
CA2467814A1 (fr) 2003-06-12
AU2002360474A1 (en) 2003-06-17
EP1461458A2 (fr) 2004-09-29

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