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WO2002068684A3 - Allele-specific primer extension assay - Google Patents

Allele-specific primer extension assay Download PDF

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Publication number
WO2002068684A3
WO2002068684A3 PCT/GB2002/000794 GB0200794W WO02068684A3 WO 2002068684 A3 WO2002068684 A3 WO 2002068684A3 GB 0200794 W GB0200794 W GB 0200794W WO 02068684 A3 WO02068684 A3 WO 02068684A3
Authority
WO
WIPO (PCT)
Prior art keywords
primer extension
base
allele
primer
specific
Prior art date
Application number
PCT/GB2002/000794
Other languages
French (fr)
Other versions
WO2002068684A8 (en
WO2002068684A2 (en
Inventor
Joakim Lundeberg
Afshin Ahmadian
Paal Nyren
Original Assignee
Pyrosequencing Ab
Dzieglewska Hanna
Joakim Lundeberg
Afshin Ahmadian
Paal Nyren
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 claimed from GB0104560A external-priority patent/GB0104560D0/en
Priority claimed from US09/791,190 external-priority patent/US20030104372A1/en
Application filed by Pyrosequencing Ab, Dzieglewska Hanna, Joakim Lundeberg, Afshin Ahmadian, Paal Nyren filed Critical Pyrosequencing Ab
Priority to AU2002233540A priority Critical patent/AU2002233540A1/en
Publication of WO2002068684A2 publication Critical patent/WO2002068684A2/en
Publication of WO2002068684A8 publication Critical patent/WO2002068684A8/en
Publication of WO2002068684A3 publication Critical patent/WO2002068684A3/en

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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
    • C12Q1/6813—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
    • 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
    • C12Q1/6858—Allele-specific amplification

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

Abstract

The present invention provides methods of allele-specific primer extension useful for detecting mutations and genetic variations. In particular the invention provides a method of detecting a base at a pre-determined position in a nucleic acid molecule, said method comprising: performing primer extension reactions using base-specific detection primers, each primer being specific for a particular base at said predetermined position, and comparing said primer extensions to determine which base is present at said position, wherein said primer extension reactions are performed using labelled nucleotides and wherein a nucleotide-degrading enzyme is present during the primer extension reaction.
PCT/GB2002/000794 2001-02-23 2002-02-22 Allele-specific primer extension assay WO2002068684A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2002233540A AU2002233540A1 (en) 2001-02-23 2002-02-22 Allele-specific primer extension assay

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
GB0104560.8 2001-02-23
GB0104560A GB0104560D0 (en) 2001-02-23 2001-02-23 Method
US09/791,190 US20030104372A1 (en) 1996-12-23 2001-02-23 Allele specific primer extension
US09/791,190 2001-02-23
US7192602A 2002-02-07 2002-02-07
US10/071,926 2002-02-07

Publications (3)

Publication Number Publication Date
WO2002068684A2 WO2002068684A2 (en) 2002-09-06
WO2002068684A8 WO2002068684A8 (en) 2003-12-04
WO2002068684A3 true WO2002068684A3 (en) 2007-12-27

Family

ID=27256081

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2002/000794 WO2002068684A2 (en) 2001-02-23 2002-02-22 Allele-specific primer extension assay

Country Status (2)

Country Link
AU (1) AU2002233540A1 (en)
WO (1) WO2002068684A2 (en)

Families Citing this family (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DK1620568T3 (en) * 2003-04-24 2009-03-30 Afshin Ahmadian Analysis for allele-specific mutation detection
EP2298785B1 (en) 2004-02-06 2012-07-25 Canadian Blood Services Simultaneous determination of blood group and platelet antigen genotypes
GB0600116D0 (en) * 2006-01-05 2006-02-15 Univ Cardiff Allele-specific sequencing
KR101183199B1 (en) 2009-11-16 2012-09-14 (주)지노믹트리 Genotyping Method
WO2012016357A1 (en) 2010-08-06 2012-02-09 Capitalbio Corporation Microarray-based assay integrated with particles for analyzing molecular interactions
US9310375B2 (en) 2010-10-27 2016-04-12 Capitalbio Corporation Luminophore-labeled molecules coupled with particles for microarray-based assays
WO2013123031A2 (en) * 2012-02-15 2013-08-22 Veridex, Llc Highly sensitive method for detecting low frequency mutations
CN103760355B (en) 2013-12-05 2015-09-16 博奥生物集团有限公司 Micro-array chip detects the particle marker method of nucleotide sequence
WO2018152162A1 (en) * 2017-02-15 2018-08-23 Omniome, Inc. Distinguishing sequences by detecting polymerase dissociation
WO2018211477A1 (en) * 2017-05-18 2018-11-22 Pharmacogenetics Limited Genome-wide capture of inter-transposable element segments for genomic sequence analysis of human dna samples with microbial contamination
CN109371115A (en) * 2018-08-24 2019-02-22 山东德诺生物科技有限公司 For detecting the primed probe group and its application of rs5918
EP3856931B1 (en) * 2018-09-25 2023-10-11 Co-Diagnostics, Inc. Allele-specific design of cooperative primers for improved nucleic acid variant genotyping

Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0530794A1 (en) * 1991-09-06 1993-03-10 Roche Diagnostics GmbH Method for detecting nucleic acids which are similar to one another
EP0593789A1 (en) * 1992-05-08 1994-04-27 Sumitomo Metal Industries, Ltd. Method of judging pre-c mutation of hepatitis b virus
WO1998028440A1 (en) * 1996-12-23 1998-07-02 Pyrosequencing Ab Method of sequencing dna based on the detection of the release of pyrophosphate
WO2000053812A2 (en) * 1999-03-12 2000-09-14 President And Fellows Of Harvard College Replica amplification of nucleic acid arrays
EP1061135A2 (en) * 1999-06-17 2000-12-20 Becton Dickinson and Company Methods and oligonucleotides for detecting nucleic acid sequence variations

Patent Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0530794A1 (en) * 1991-09-06 1993-03-10 Roche Diagnostics GmbH Method for detecting nucleic acids which are similar to one another
EP0593789A1 (en) * 1992-05-08 1994-04-27 Sumitomo Metal Industries, Ltd. Method of judging pre-c mutation of hepatitis b virus
WO1998028440A1 (en) * 1996-12-23 1998-07-02 Pyrosequencing Ab Method of sequencing dna based on the detection of the release of pyrophosphate
WO2000053812A2 (en) * 1999-03-12 2000-09-14 President And Fellows Of Harvard College Replica amplification of nucleic acid arrays
EP1061135A2 (en) * 1999-06-17 2000-12-20 Becton Dickinson and Company Methods and oligonucleotides for detecting nucleic acid sequence variations

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
AHMADIAN A ET AL: "Genotyping by apyrase-mediated allele-specific extension.", NUCLEIC ACIDS RESEARCH. ENGLAND 15 DEC 2001, vol. 29, no. 24, 15 December 2001 (2001-12-15), pages E121, XP002236747, ISSN: 1362-4962 *
FAN J-B ET AL: "Parallel genotyping of human SNPs using generic high-density oligonucleotide tag arrays", GENOME RESEARCH 2000 UNITED STATES, vol. 10, no. 6, 2000, pages 853 - 860, XP002236784, ISSN: 1088-9051 *

Also Published As

Publication number Publication date
WO2002068684A8 (en) 2003-12-04
WO2002068684A2 (en) 2002-09-06
AU2002233540A1 (en) 2002-09-12
AU2002233540A8 (en) 2008-02-14

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