EP2859123A4 - Procédé de détermination de séquence à l'aide d'étiquettes de séquence - Google Patents

Procédé de détermination de séquence à l'aide d'étiquettes de séquence

Info

Publication number
EP2859123A4
EP2859123A4 EP13804085.2A EP13804085A EP2859123A4 EP 2859123 A4 EP2859123 A4 EP 2859123A4 EP 13804085 A EP13804085 A EP 13804085A EP 2859123 A4 EP2859123 A4 EP 2859123A4
Authority
EP
European Patent Office
Prior art keywords
sequence
determination
tags
sequence tags
sequence determination
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Withdrawn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
EP13804085.2A
Other languages
German (de)
English (en)
Other versions
EP2859123A2 (fr
Inventor
Malek Faham
Martin Moorhead
Thomas Willis
Jianbiao Zheng
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.)
Adaptive Biotechnologies Corp
Original Assignee
Sequenta 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
Priority claimed from US13/835,093 external-priority patent/US9506119B2/en
Application filed by Sequenta Inc filed Critical Sequenta Inc
Publication of EP2859123A2 publication Critical patent/EP2859123A2/fr
Publication of EP2859123A4 publication Critical patent/EP2859123A4/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Withdrawn legal-status Critical Current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
    • C12Q1/6869—Methods for sequencing
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • 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

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (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)
  • Peptides Or Proteins (AREA)
EP13804085.2A 2012-06-11 2013-06-11 Procédé de détermination de séquence à l'aide d'étiquettes de séquence Withdrawn EP2859123A4 (fr)

Applications Claiming Priority (6)

Application Number Priority Date Filing Date Title
US201261658317P 2012-06-11 2012-06-11
US201261738277P 2012-12-17 2012-12-17
US201361776647P 2013-03-11 2013-03-11
US13/835,093 US9506119B2 (en) 2008-11-07 2013-03-15 Method of sequence determination using sequence tags
US201361829054P 2013-05-30 2013-05-30
PCT/US2013/045276 WO2013188471A2 (fr) 2012-06-11 2013-06-11 Procédé de détermination de séquence à l'aide d'étiquettes de séquence

Publications (2)

Publication Number Publication Date
EP2859123A2 EP2859123A2 (fr) 2015-04-15
EP2859123A4 true EP2859123A4 (fr) 2015-12-16

Family

ID=49758873

Family Applications (1)

Application Number Title Priority Date Filing Date
EP13804085.2A Withdrawn EP2859123A4 (fr) 2012-06-11 2013-06-11 Procédé de détermination de séquence à l'aide d'étiquettes de séquence

Country Status (7)

Country Link
EP (1) EP2859123A4 (fr)
JP (1) JP2015519081A (fr)
CN (1) CN104520443A (fr)
AU (1) AU2013274366A1 (fr)
CA (1) CA2875542A1 (fr)
SG (1) SG11201407888RA (fr)
WO (1) WO2013188471A2 (fr)

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US9365901B2 (en) 2008-11-07 2016-06-14 Adaptive Biotechnologies Corp. Monitoring immunoglobulin heavy chain evolution in B-cell acute lymphoblastic leukemia
US9394567B2 (en) 2008-11-07 2016-07-19 Adaptive Biotechnologies Corporation Detection and quantification of sample contamination in immune repertoire analysis
US8748103B2 (en) 2008-11-07 2014-06-10 Sequenta, Inc. Monitoring health and disease status using clonotype profiles
US9506119B2 (en) 2008-11-07 2016-11-29 Adaptive Biotechnologies Corp. Method of sequence determination using sequence tags
US8628927B2 (en) 2008-11-07 2014-01-14 Sequenta, Inc. Monitoring health and disease status using clonotype profiles
EP2364368B1 (fr) 2008-11-07 2014-01-15 Sequenta, Inc. Procédés de surveillance de maladies par analyse de séquence
US9528160B2 (en) 2008-11-07 2016-12-27 Adaptive Biotechnolgies Corp. Rare clonotypes and uses thereof
DK3059337T3 (da) 2009-01-15 2019-07-22 Adaptive Biotechnologies Corp Adaptive immunity profiling og metoder til frembringelse af monoklonale antibodier
RU2014144463A (ru) 2009-06-25 2015-06-20 Фред Хатчинсон Кансэр Рисёч Сентер Способ измерения адаптивного иммунитета
US9043160B1 (en) 2009-11-09 2015-05-26 Sequenta, Inc. Method of determining clonotypes and clonotype profiles
US10385475B2 (en) 2011-09-12 2019-08-20 Adaptive Biotechnologies Corp. Random array sequencing of low-complexity libraries
US9279159B2 (en) 2011-10-21 2016-03-08 Adaptive Biotechnologies Corporation Quantification of adaptive immune cell genomes in a complex mixture of cells
EP3388535B1 (fr) 2011-12-09 2021-03-24 Adaptive Biotechnologies Corporation Diagnostic de malignités lymphoïdes et détection de maladies résiduelles minimales
US9499865B2 (en) 2011-12-13 2016-11-22 Adaptive Biotechnologies Corp. Detection and measurement of tissue-infiltrating lymphocytes
DK2823060T3 (en) 2012-03-05 2018-05-28 Adaptive Biotechnologies Corp Determination of associated immune receptor chains from frequency-matched subunits
EP3091089B1 (fr) 2012-05-08 2019-01-23 Adaptive Biotechnologies Corporation Procédé de mesure et de calibrage d'un biais d'amplification dans des réactions pcr multiplexées
US20160115532A1 (en) * 2012-08-10 2016-04-28 Sequenta, Inc. High sensitivity mutation detection using sequence tags
DE202013012824U1 (de) 2012-09-04 2020-03-10 Guardant Health, Inc. Systeme zum Erfassen von seltenen Mutationen und einer Kopienzahlvariation
US10876152B2 (en) 2012-09-04 2020-12-29 Guardant Health, Inc. Systems and methods to detect rare mutations and copy number variation
US11913065B2 (en) 2012-09-04 2024-02-27 Guardent Health, Inc. Systems and methods to detect rare mutations and copy number variation
US20160040229A1 (en) 2013-08-16 2016-02-11 Guardant Health, Inc. Systems and methods to detect rare mutations and copy number variation
US20160002731A1 (en) 2012-10-01 2016-01-07 Adaptive Biotechnologies Corporation Immunocompetence assessment by adaptive immune receptor diversity and clonality characterization
US10150996B2 (en) 2012-10-19 2018-12-11 Adaptive Biotechnologies Corp. Quantification of adaptive immune cell genomes in a complex mixture of cells
US9708657B2 (en) 2013-07-01 2017-07-18 Adaptive Biotechnologies Corp. Method for generating clonotype profiles using sequence tags
ES2660989T3 (es) 2013-12-28 2018-03-27 Guardant Health, Inc. Métodos y sistemas para detectar variantes genéticas
DE102014200446B3 (de) * 2014-01-13 2015-01-08 Technische Universität Dresden Verfahren zur Dekonvolution Nukleinsäure enthaltender Substanzgemische
WO2015134787A2 (fr) 2014-03-05 2015-09-11 Adaptive Biotechnologies Corporation Procédés dans lesquels on utilise des molécules synthétiques contenant des randomères
US10066265B2 (en) 2014-04-01 2018-09-04 Adaptive Biotechnologies Corp. Determining antigen-specific t-cells
CA2966201A1 (fr) 2014-10-29 2016-05-06 Adaptive Biotechnologies Corp. Detection simultanee hautement multiplexee d'acides nucleiques codant pour des heterodimeres de recepteurs de l'immunite adaptative apparies a partir de nombreux echantillons
ES2659492T3 (es) 2014-11-05 2018-03-15 Fundacion De Investigacion Hospital 12 De Octubre Método para cuantificar el nivel de enfermedad mínima residual en un sujeto
US10246701B2 (en) 2014-11-14 2019-04-02 Adaptive Biotechnologies Corp. Multiplexed digital quantitation of rearranged lymphoid receptors in a complex mixture
EP3224384A4 (fr) 2014-11-25 2018-04-18 Adaptive Biotechnologies Corp. Caractérisation de la réponse immunitaire adaptative à la vaccination ou à l'infection à l'aide du séquençage du répertoire immunitaire
US11047008B2 (en) 2015-02-24 2021-06-29 Adaptive Biotechnologies Corporation Methods for diagnosing infectious disease and determining HLA status using immune repertoire sequencing
WO2016161273A1 (fr) 2015-04-01 2016-10-06 Adaptive Biotechnologies Corp. Procédé d'identification des récepteurs de lymphocytes t spécifiques à compatibilité humaine pour une cible antigénique
CN105095687B (zh) * 2015-06-26 2018-10-26 南方科技大学 一种免疫组库数据分析方法及终端
WO2017013170A1 (fr) 2015-07-22 2017-01-26 F. Hoffmann-La Roche Ag Identification d'épitopes antigéniques et séquences immunitaires reconnaissant les antigènes
US10539564B2 (en) 2015-07-22 2020-01-21 Roche Sequencing Solutions, Inc. Identification of antigen epitopes and immune sequences recognizing the antigens
EP3387108B1 (fr) * 2015-12-08 2022-05-25 Quantapore, Inc. Procédé de translocation d'acides nucléiques via des nanopores
CN117174167A (zh) 2015-12-17 2023-12-05 夸登特健康公司 通过分析无细胞dna确定肿瘤基因拷贝数的方法
US10428325B1 (en) 2016-09-21 2019-10-01 Adaptive Biotechnologies Corporation Identification of antigen-specific B cell receptors
CN107955831A (zh) * 2016-10-13 2018-04-24 深圳华大基因研究院 用于淋巴细胞定量检测的标记物和淋巴细胞定量检测方法
CN106755410B (zh) * 2016-12-23 2019-12-06 孙涛 一种基于高通量测序同时检测t细胞和b细胞免疫组库的方法
WO2018213235A1 (fr) * 2017-05-16 2018-11-22 Life Technologies Corporation Procédés de compression de données de séquence d'acides nucléiques à étiquetage moléculaire
WO2019042016A1 (fr) 2017-08-31 2019-03-07 深圳华大智造科技有限公司 Sonde d'acides nucléiques et procédé de séquençage d'acides nucléiques
WO2019046817A1 (fr) 2017-09-01 2019-03-07 Life Technologies Corporation Compositions et méthodes pour séquençage de répertoire immunologique
US11649489B2 (en) 2017-10-25 2023-05-16 Bgi Shenzhen Nucleic acid sequencing method and nucleic acid sequencing kit
US11254980B1 (en) 2017-11-29 2022-02-22 Adaptive Biotechnologies Corporation Methods of profiling targeted polynucleotides while mitigating sequencing depth requirements
EP3824103A1 (fr) 2018-07-18 2021-05-26 Life Technologies Corporation Compositions et méthodes destinées au séquençage de répertoire immunologique
CN111172258B (zh) * 2020-02-24 2023-06-16 国家海洋环境监测中心 基于宏条形码技术的海洋浮游动物多样性的评价方法
WO2021191829A1 (fr) * 2020-03-24 2021-09-30 Angstrom Bio, Inc. Dosages pour la détection d'agents pathogènes
CA3214486A1 (fr) 2021-03-24 2022-09-29 Genentech, Inc. Edition de gene du tcr efficace dans des lymphocytes t
CN113355403A (zh) * 2021-05-12 2021-09-07 邢迎春 一种利用环境dna技术检测鱼类物种多样性的方法

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5846719A (en) * 1994-10-13 1998-12-08 Lynx Therapeutics, Inc. Oligonucleotide tags for sorting and identification
WO2009017678A2 (fr) * 2007-07-26 2009-02-05 Pacific Biosciences Of California, Inc. Séquençage moléculaire redondant
WO2012055929A1 (fr) * 2010-10-26 2012-05-03 Illumina, Inc. Procédés de séquençage
WO2013130512A2 (fr) * 2012-02-27 2013-09-06 The University Of North Carolina At Chapel Hill Procédés et utilisations d'étiquettes moléculaires

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US8691510B2 (en) * 2008-11-07 2014-04-08 Sequenta, Inc. Sequence analysis of complex amplicons
US8748103B2 (en) * 2008-11-07 2014-06-10 Sequenta, Inc. Monitoring health and disease status using clonotype profiles
EP2364368B1 (fr) * 2008-11-07 2014-01-15 Sequenta, Inc. Procédés de surveillance de maladies par analyse de séquence

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5846719A (en) * 1994-10-13 1998-12-08 Lynx Therapeutics, Inc. Oligonucleotide tags for sorting and identification
WO2009017678A2 (fr) * 2007-07-26 2009-02-05 Pacific Biosciences Of California, Inc. Séquençage moléculaire redondant
WO2012055929A1 (fr) * 2010-10-26 2012-05-03 Illumina, Inc. Procédés de séquençage
WO2013130512A2 (fr) * 2012-02-27 2013-09-06 The University Of North Carolina At Chapel Hill Procédés et utilisations d'étiquettes moléculaires

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
C. B. JABARA ET AL: "Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES, vol. 108, no. 50, 30 November 2011 (2011-11-30), pages 20166 - 20171, XP055201609, ISSN: 0027-8424, DOI: 10.1073/pnas.1110064108 *
MEGAN MANION ET AL: "Reducing Error in Next Generation Sequencing Data with NextGENe Software's Condensation Tool", March 2009 (2009-03-01), pages 1 - 3, XP055226038, Retrieved from the Internet <URL:http://www.softgenetics.com/PDF/ReducingError_NextGenerationSequencing_AppNote.pdf> [retrieved on 20151105] *
MILLER JASON R ET AL: "Assembly algorithms for next-generation sequencing data", GENOMICS, ACADEMIC PRESS, SAN DIEGO, US, vol. 95, no. 6, 6 March 2010 (2010-03-06), pages 315 - 327, XP009165741, ISSN: 0888-7543 *

Also Published As

Publication number Publication date
WO2013188471A3 (fr) 2014-04-03
CN104520443A (zh) 2015-04-15
JP2015519081A (ja) 2015-07-09
EP2859123A2 (fr) 2015-04-15
WO2013188471A2 (fr) 2013-12-19
CA2875542A1 (fr) 2013-12-19
AU2013274366A1 (en) 2015-01-22
SG11201407888RA (en) 2014-12-30

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