CA2693384C - Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5'-3' exonuclease activity - Google Patents

Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5'-3' exonuclease activity Download PDF

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Publication number
CA2693384C
CA2693384C CA2693384A CA2693384A CA2693384C CA 2693384 C CA2693384 C CA 2693384C CA 2693384 A CA2693384 A CA 2693384A CA 2693384 A CA2693384 A CA 2693384A CA 2693384 C CA2693384 C CA 2693384C
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CA
Canada
Prior art keywords
sequence
target
blocker oligonucleotide
nucleotide
oligonucleotide
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.)
Expired - Fee Related
Application number
CA2693384A
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English (en)
French (fr)
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CA2693384A1 (en
Inventor
Nicolas Newton
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F Hoffmann La Roche AG
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F Hoffmann La Roche AG
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Application filed by F Hoffmann La Roche AG filed Critical F Hoffmann La Roche AG
Publication of CA2693384A1 publication Critical patent/CA2693384A1/en
Application granted granted Critical
Publication of CA2693384C publication Critical patent/CA2693384C/en
Expired - Fee Related legal-status Critical Current
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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
    • C12Q1/6844—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)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Enzymes And Modification Thereof (AREA)
CA2693384A 2007-08-08 2008-08-07 Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5'-3' exonuclease activity Expired - Fee Related CA2693384C (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US96408907P 2007-08-08 2007-08-08
US60/964,089 2007-08-08
PCT/EP2008/006476 WO2009019008A1 (en) 2007-08-08 2008-08-07 Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5'-3' exonuclease activity

Publications (2)

Publication Number Publication Date
CA2693384A1 CA2693384A1 (en) 2009-02-12
CA2693384C true CA2693384C (en) 2015-04-14

Family

ID=39942715

Family Applications (1)

Application Number Title Priority Date Filing Date
CA2693384A Expired - Fee Related CA2693384C (en) 2007-08-08 2008-08-07 Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5'-3' exonuclease activity

Country Status (7)

Country Link
US (1) US8071338B2 (enExample)
EP (1) EP2173910B1 (enExample)
JP (1) JP5524838B2 (enExample)
CN (1) CN101778952B (enExample)
CA (1) CA2693384C (enExample)
ES (1) ES2562789T3 (enExample)
WO (1) WO2009019008A1 (enExample)

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PT2183379E (pt) 2007-08-01 2015-09-25 Dana Farber Cancer Inst Inc Enriquecimento de uma sequência alvo
US8206929B2 (en) * 2009-01-07 2012-06-26 Roche Molecular Systems, Inc. Nucleic acid amplification with allele-specific suppression of sequence variants
US20110129832A1 (en) 2009-10-27 2011-06-02 Swift Biosciences, Inc. Polynucleotide Primers and Probes
AU2011224534B2 (en) 2010-03-08 2014-10-09 Dana-Farber Cancer Institute, Inc. Full COLD-PCR enrichment with reference blocking sequence
KR101851382B1 (ko) * 2010-09-10 2018-04-23 가부시키가이샤 엘에스아이 메디엔스 광을 이용한 핵산의 증폭 억제 방법 및 고감도의 선택적 핵산 증폭 방법
DK2633071T3 (en) 2010-10-27 2017-01-30 Harvard College COMPOSITIONS OF "MAINTENANCE" PRIMER DUPLEXES AND METHODS OF USE
US20120225421A1 (en) * 2011-02-28 2012-09-06 Transgenomic, Inc. Kit and method for sequencing a target dna in a mixed population
DK2691541T3 (en) * 2011-03-31 2018-01-22 Dana Farber Cancer Inst Inc PROCEDURE FOR ENRICHMENT OF SINGLE DRAWED MUTANTS SEQUENCES FROM A MIXTURE OF WILD TYPE AND MUTANTS
WO2012151328A2 (en) 2011-05-02 2012-11-08 President And Fellows Of Harvard College Spatial sequestration of dynamic nucleic acid circuits
KR102252447B1 (ko) 2011-05-04 2021-05-17 바이오셉트 인코포레이티드 핵산 서열 변이체를 검출하는 방법
US9518292B2 (en) 2011-05-26 2016-12-13 Brandeis University Methods for suppression PCR
US9617392B2 (en) 2011-07-10 2017-04-11 President And Fellows Of Harvard College Compositions and methods for self-assembly of polymers with complementary macroscopic and microscopic scale units
EP2570487A1 (en) 2011-09-16 2013-03-20 Lexogen GmbH Nucleic acid transcription method
EP3263718A1 (en) 2011-09-16 2018-01-03 Lexogen GmbH Nucleic acid transcription method
US9260714B2 (en) 2011-12-02 2016-02-16 Roche Molecular Systems, Inc. Suppression of non-specific amplification with high-homology oligonucleotides
US9133490B2 (en) 2012-05-16 2015-09-15 Transgenomic, Inc. Step-up method for COLD-PCR enrichment
WO2014177540A1 (en) * 2013-04-29 2014-11-06 Qiagen Marseille A method for dna amplification with a blocking oligonucleotide
CA2926722A1 (en) * 2013-10-19 2015-04-23 Trovagene, Inc. Detecting mutations in disease over time
EP4512908A3 (en) * 2014-05-19 2025-03-26 William Marsh Rice University Allele-specific amplification using a composition of overlapping non-allele-specific primer and allele-specific blocker oligonucleotides
PL3198026T3 (pl) 2014-08-07 2020-05-18 Pharmassist Ltd Metody określania mutacji genu pik3ca w próbce
US12391985B2 (en) 2014-08-07 2025-08-19 Pharmassist Ltd Method of determining PIK3CA mutational status in a sample
US20160090633A1 (en) 2014-09-26 2016-03-31 Janssen Pharmaceutica Nv Use of fgfr mutant gene panels in identifying cancer patients that will be responsive to treatment with an fgfr inhibitor
US9909169B2 (en) * 2014-12-17 2018-03-06 Roche Molecular Systems, Inc. Allele-specific amplification of nucleic acids using blocking oligonucleotides for wild type suppression
JP5813263B1 (ja) * 2015-03-31 2015-11-17 日鉄住金環境株式会社 遺伝子変異の検出方法及びそれに用いる蛍光標識オリゴヌクレオチド
US9657353B2 (en) 2015-06-26 2017-05-23 Great Basin Scientific, Inc. Specific detection of organisms derived from a sample
WO2017193025A1 (en) 2016-05-06 2017-11-09 William Marsh Rice University Stoichiometric nucleic acid purification using randomer capture probe libraries
EP3464596B1 (en) * 2016-06-07 2025-07-30 Cepheid Thermostable polymerase inhibitor compositions and methods
WO2018111835A1 (en) 2016-12-12 2018-06-21 Dana-Farber Cancer Institute, Inc. Compositions and methods for molecular barcoding of dna molecules prior to mutation enrichment and/or mutation detection
US11174511B2 (en) 2017-07-24 2021-11-16 Dana-Farber Cancer Institute, Inc. Methods and compositions for selecting and amplifying DNA targets in a single reaction mixture
WO2019099420A1 (en) * 2017-11-15 2019-05-23 Yan Wang A method for detecting multiple dna mutations and copy number variations
CN111683958A (zh) 2018-02-20 2020-09-18 威廉马歇莱思大学 使用多重抑制探针置换扩增进行等位基因富集的系统和方法
EP3889273A1 (en) 2018-07-19 2021-10-06 Biofidelity Ltd Improved polynucleotide sequence detection method
AU2019411267B2 (en) * 2018-12-17 2025-07-17 Illumina Cambridge Limited Primer oligonucleotide for sequencing
GB201919186D0 (en) 2019-12-23 2020-02-05 Biofidelity Ltd Simplified polynucleotide sequence detection method
WO2023039228A2 (en) * 2021-09-13 2023-03-16 Nexgen Cancer Detection Llc Methods for detecting a target polynucleotide in a sample comprising a mixture of the target polynucleotide and a non-target polynucleotide

Family Cites Families (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CA2163393C (en) 1994-11-30 2003-04-22 Colleen Marie Nycz Amplification and detection of mycobacteria nucleic acids
US5801155A (en) * 1995-04-03 1998-09-01 Epoch Pharmaceuticals, Inc. Covalently linked oligonucleotide minor grove binder conjugates
US5849497A (en) 1997-04-03 1998-12-15 The Research Foundation Of State University Of New York Specific inhibition of the polymerase chain reaction using a non-extendable oligonucleotide blocker
FR2779154B1 (fr) 1998-05-27 2002-07-12 Bio Merieux Procede d'amplification d'au moins une sequence nucleotidique particuliere et amorces de mise en oeuvre
CA2356697C (en) * 1999-01-06 2010-06-22 Cornell Research Foundation, Inc. Accelerating identification of single nucleotide polymorphisms and alignment of clones in genomic sequencing
EP1253205A1 (en) 2001-04-24 2002-10-30 LION Bioscience AG Method of blocking amplification of selected sequences
GB0406863D0 (en) 2004-03-26 2004-04-28 Qiagen As Nucleic acid sequencing
WO2006026828A1 (en) 2004-09-10 2006-03-16 Human Genetic Signatures Pty Ltd Amplification blocker comprising intercalating nucleic acids (tna) containing intercalating pseudonucleotides (ipn)

Also Published As

Publication number Publication date
JP5524838B2 (ja) 2014-06-18
HK1146094A1 (zh) 2011-05-13
EP2173910A1 (en) 2010-04-14
EP2173910B1 (en) 2015-12-09
JP2010535480A (ja) 2010-11-25
US20090053720A1 (en) 2009-02-26
CA2693384A1 (en) 2009-02-12
ES2562789T3 (es) 2016-03-08
CN101778952B (zh) 2016-05-25
WO2009019008A1 (en) 2009-02-12
CN101778952A (zh) 2010-07-14
US8071338B2 (en) 2011-12-06

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