CA2828535A1 - Kit and method for sequencing a target dna in a mixed population - Google Patents

Kit and method for sequencing a target dna in a mixed population Download PDF

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Publication number
CA2828535A1
CA2828535A1 CA2828535A CA2828535A CA2828535A1 CA 2828535 A1 CA2828535 A1 CA 2828535A1 CA 2828535 A CA2828535 A CA 2828535A CA 2828535 A CA2828535 A CA 2828535A CA 2828535 A1 CA2828535 A1 CA 2828535A1
Authority
CA
Canada
Prior art keywords
nucleic acid
sequencing
sequence
strand
target
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.)
Abandoned
Application number
CA2828535A
Other languages
English (en)
French (fr)
Inventor
Katherine RICHARDSON
Benjamin Legendre Jr.
Yanggu Shi
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.)
Precipio Inc
Original Assignee
Transgenomic 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 Transgenomic Inc filed Critical Transgenomic Inc
Publication of CA2828535A1 publication Critical patent/CA2828535A1/en
Abandoned 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
    • C12Q1/6806—Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
    • 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
    • C12Q1/6869—Methods for sequencing
    • 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
    • C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
    • C12Q1/701—Specific hybridization probes
    • C12Q1/708—Specific hybridization probes for papilloma
    • 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
    • C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
    • C12Q2563/173—Nucleic acid detection characterized by the use of physical, structural and functional properties staining/intercalating agent, e.g. ethidium bromide

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Engineering & Computer Science (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Physics & Mathematics (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Virology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
CA2828535A 2011-02-28 2012-02-28 Kit and method for sequencing a target dna in a mixed population Abandoned CA2828535A1 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201161447490P 2011-02-28 2011-02-28
US61/447,490 2011-02-28
US201161532887P 2011-09-09 2011-09-09
US61/532,887 2011-09-09
PCT/US2012/026938 WO2012118802A1 (en) 2011-02-28 2012-02-28 Kit and method for sequencing a target dna in a mixed population

Publications (1)

Publication Number Publication Date
CA2828535A1 true CA2828535A1 (en) 2012-09-07

Family

ID=45815993

Family Applications (1)

Application Number Title Priority Date Filing Date
CA2828535A Abandoned CA2828535A1 (en) 2011-02-28 2012-02-28 Kit and method for sequencing a target dna in a mixed population

Country Status (8)

Country Link
US (1) US20120225421A1 (enExample)
EP (1) EP2681332A1 (enExample)
JP (1) JP2014507950A (enExample)
KR (1) KR20140010093A (enExample)
CN (1) CN103517993A (enExample)
AU (1) AU2012223438A1 (enExample)
CA (1) CA2828535A1 (enExample)
WO (1) WO2012118802A1 (enExample)

Families Citing this family (14)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2011224534B2 (en) 2010-03-08 2014-10-09 Dana-Farber Cancer Institute, Inc. Full COLD-PCR enrichment with reference blocking sequence
EP2691541B1 (en) 2011-03-31 2017-10-18 Dana-Farber Cancer Institute, Inc. Method for enriching in single-stranded mutant sequences from mixture of wild-type and mutant sequences
WO2014089797A1 (zh) * 2012-12-13 2014-06-19 深圳华大基因科技服务有限公司 用于高通量测序的锁核酸修饰的dna片段
US10913977B2 (en) 2013-07-24 2021-02-09 Dana-Farber Cancer Institute, Inc. Methods and compositions to enable enrichment of minor DNA alleles by limiting denaturation time in PCR or simply enable enrichment of minor DNA alleles by limiting the denaturation time in PCR
KR20160003444A (ko) * 2014-07-01 2016-01-11 주식회사 유진셀 핵산말단분해효소를 이용한 서열-특이적 핵산 검출 방법 및 장치와 이에 사용되는 키트
WO2016144619A1 (en) * 2015-03-06 2016-09-15 Pillar Biosciences Inc. Selective amplification of overlapping amplicons
WO2016168561A1 (en) 2015-04-15 2016-10-20 Sundaresan Tilak K Lna-based mutant enrichment next-generation sequencing assays
JP2018512878A (ja) * 2015-04-20 2018-05-24 ネオゲノミクス ラボラトリーズ， インコーポレイテッド 次世代シークエンシングの感度を高めるための方法
WO2017070339A1 (en) * 2015-10-20 2017-04-27 Richardson Katherine Microfluidic device for enrichment of nucleic acid sequence alterations
CA3046953A1 (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
CN115927566B (zh) * 2017-09-20 2025-02-18 深圳华大智造科技股份有限公司 一种用于Small RNA的测序方法、测序试剂和应用
WO2021006353A1 (ja) * 2019-07-11 2021-01-14 学校法人東京理科大学 固相担体を用いた核酸増幅方法
CN113567404A (zh) * 2021-06-11 2021-10-29 上海交通大学 一种分析肿瘤细胞耐药性的方法和试剂盒

Family Cites Families (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
GB2293238A (en) * 1994-09-13 1996-03-20 Inceltec Ltd Primers for replication and/or amplification reactions
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
US6045993A (en) * 1998-05-30 2000-04-04 Visible Genetics Inc. Method, reagent and kit for genotyping of human papillomavirus
DE10012540B4 (de) * 2000-03-15 2004-09-23 Vermicon Ag Oligonukleotide und Verfahren zum spezifischen Nachweis von Mikroorganismen durch Polymerase-Kettenreaktion
CN1293204C (zh) * 2000-08-30 2007-01-03 戴诺生物技术有限公司 等位基因的测定方法
GB0406863D0 (en) * 2004-03-26 2004-04-28 Qiagen As Nucleic acid sequencing
ES2547053T3 (es) * 2007-08-01 2015-10-01 Dana Farber Cancer Institute Enriquecimiento de una secuencia diana
US8071338B2 (en) * 2007-08-08 2011-12-06 Roche Molecular Systems, Inc. Suppression of amplification using an oligonucleotide and a polymerase significantly lacking 5′-3′ nuclease activity
ES2359058B1 (es) * 2009-07-02 2012-03-27 Consejo Superior De Investigaciones Cient�?Ficas (Csic) Quimera de adn polimerasa del fago ph1 29.
CN102470136B (zh) 2009-07-29 2013-12-25 内尔维阿诺医学科学有限公司 Plk 抑制剂的盐类
AU2011224534B2 (en) 2010-03-08 2014-10-09 Dana-Farber Cancer Institute, Inc. Full COLD-PCR enrichment with reference blocking sequence

Also Published As

Publication number Publication date
US20120225421A1 (en) 2012-09-06
AU2012223438A1 (en) 2013-09-26
KR20140010093A (ko) 2014-01-23
JP2014507950A (ja) 2014-04-03
WO2012118802A1 (en) 2012-09-07
WO2012118802A9 (en) 2013-07-18
EP2681332A1 (en) 2014-01-08
CN103517993A (zh) 2014-01-15

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Legal Events

Date Code Title Description
FZDE Discontinued

Effective date: 20180228