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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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 (https=)
EP (1) EP2173910B1 (https=)
JP (1) JP5524838B2 (https=)
CN (1) CN101778952B (https=)
CA (1) CA2693384C (https=)
ES (1) ES2562789T3 (https=)
WO (1) WO2009019008A1 (https=)

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EP2183379B1 (en) 2007-08-01 2015-04-15 Dana Farber Cancer Institute Enrichment of a target sequence
US8206929B2 (en) * 2009-01-07 2012-06-26 Roche Molecular Systems, Inc. Nucleic acid amplification with allele-specific suppression of sequence variants
CA2778532A1 (en) 2009-10-27 2011-05-12 Swift Biosciences, Inc. Polynucleotide primers and probes
CN102859003B (zh) 2010-03-08 2014-07-30 达纳-法伯癌症研究院有限公司 使用参考封闭序列的全cold-pcr富集
US9944979B2 (en) * 2010-09-10 2018-04-17 Lsi Medience Corporation Inhibition method of nucleic acid amplification by photoirradiation and method of selective nucleic acid amplification with high sensitivity
AU2011319755B2 (en) 2010-10-27 2017-02-23 President And Fellows Of Harvard College Compositions of toehold primer duplexes and methods of use
AU2012223438A1 (en) * 2011-02-28 2013-09-26 Transgenomic, Inc Kit and method for sequencing a target DNA in a mixed population
EP3333269B1 (en) * 2011-03-31 2021-05-05 Dana-Farber Cancer Institute, Inc. Methods to enable multiplex cold-pcr
US9796748B2 (en) 2011-05-02 2017-10-24 President And Fellows Of Harvard College Spatial sequestration of dynamic nucleic acid circuits
EP2705162B1 (en) * 2011-05-04 2018-07-11 Biocept, Inc. Methods for detecting nucleic acid sequence variants
WO2012162621A1 (en) * 2011-05-26 2012-11-29 Brandeis University Methods for suppression pcr
EP2758458A4 (en) 2011-07-10 2015-10-21 Harvard College COMPOSITIONS AND METHODS FOR SELF-ASSEMBLING POLYMERS WITH COMPLEMENTARY MACROSCOPIC AND MICROSCOPIC SCALE UNITS
EP2570487A1 (en) 2011-09-16 2013-03-20 Lexogen GmbH Nucleic acid transcription method
DK2756098T3 (en) 2011-09-16 2018-09-03 Lexogen Gmbh Process for Preparing a Library of Nucleic Acid Molecules
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
AU2014336987A1 (en) * 2013-10-19 2016-04-14 Trovagene, Inc. Detecting mutations in disease over time
JP2017515484A (ja) * 2014-05-19 2017-06-15 ウィリアム マーシュ ライス ユニバーシティＷｉｌｌｉａｍ Ｍａｒｓｈ Ｒｉｃｅ Ｕｎｉｖｅｒｓｉｔｙ 重複する非対立遺伝子特異的プライマー及び対立遺伝子特異的ブロッカーオリゴヌクレオチドの組成物を用いる対立遺伝子特異的な増幅
US12391985B2 (en) 2014-08-07 2025-08-19 Pharmassist Ltd Method of determining PIK3CA mutational status in a sample
RS59710B1 (sr) * 2014-08-07 2020-01-31 Pharmassist Ltd Metod određivanja mutacionog statusa pik3ca u uzorku
EP4063516A1 (en) * 2014-09-26 2022-09-28 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
US11414686B2 (en) 2016-05-06 2022-08-16 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
US11371090B2 (en) 2016-12-12 2022-06-28 Dana-Farber Cancer Institute, Inc. Compositions and methods for molecular barcoding of DNA molecules prior to mutation enrichment and/or mutation detection
WO2019023243A1 (en) 2017-07-24 2019-01-31 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
US12331350B2 (en) 2018-02-20 2025-06-17 William Marsh Rice University Systems and methods for allele enrichment using multiplexed blocker displacement amplification
ES2874753T3 (es) 2018-07-19 2021-11-05 Biofidelity Ltd Método mejorado de detección de secuencia de polinucleótidos
CN112654714B (zh) * 2018-12-17 2024-10-11 伊卢米纳剑桥有限公司 用于测序的引物寡核苷酸
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
EP1794173B1 (en) 2004-09-10 2010-08-04 Human Genetic Signatures PTY Ltd Amplification blocker comprising intercalating nucleic acids (ina) containing intercalating pseudonucleotides (ipn)

Also Published As

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

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