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Withdrawn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Withdrawn legal-status Critical Current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)

Families Citing this family (52)

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US9394567B2 (en) 2008-11-07 2016-07-19 Adaptive Biotechnologies Corporation Detection and quantification of sample contamination in immune repertoire analysis
US9528160B2 (en) 2008-11-07 2016-12-27 Adaptive Biotechnolgies Corp. Rare clonotypes and uses thereof
US8628927B2 (en) 2008-11-07 2014-01-14 Sequenta, Inc. Monitoring health and disease status using clonotype profiles
CN104195227B (zh) 2008-11-07 2017-04-12 适应生物技术公司 通过序列分析监测状况的方法
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
US9365901B2 (en) 2008-11-07 2016-06-14 Adaptive Biotechnologies Corp. Monitoring immunoglobulin heavy chain evolution in B-cell acute lymphoblastic leukemia
EP2387627B1 (fr) 2009-01-15 2016-03-30 Adaptive Biotechnologies Corporation Profilage d'immunité adaptative et méthodes de génération d'anticorps monoclonaux
CN102459643B (zh) 2009-06-25 2016-06-01 弗雷德哈钦森癌症研究中心 检测获得性免疫的方法
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
EP2768982A4 (fr) 2011-10-21 2015-06-03 Adaptive Biotechnologies Corp Quantification de génomes de cellules immunitaires adaptatives dans un mélange complexe de cellules
US9824179B2 (en) 2011-12-09 2017-11-21 Adaptive Biotechnologies Corp. Diagnosis of lymphoid malignancies and minimal residual disease detection
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
CA2872468C (fr) 2012-05-08 2020-10-27 Adaptive Biotechnologies Corporation Compositions et procede de mesure et de calibrage d'un biais d'amplification dans des reactions de pcr multiplexe
WO2014026031A1 (fr) * 2012-08-10 2014-02-13 Sequenta, Inc. Détection de mutation à haute sensibilité à l'aide d'étiquettes de séquence
US20160040229A1 (en) 2013-08-16 2016-02-11 Guardant Health, Inc. Systems and methods to detect rare mutations and copy number variation
GB2533006B (en) 2012-09-04 2017-06-07 Guardant Health Inc Systems and methods to detect copy number variation
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
JP6449160B2 (ja) 2012-10-01 2019-01-09 アダプティブ バイオテクノロジーズ コーポレイション 適応免疫受容体多様性およびクローン性特性決定による免疫能力評価関連出願の相互参照
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
EP3018214B1 (fr) 2014-11-05 2017-12-13 Fundacion de Investigacion Hospital 12 de Octubre Procédé pour quantifier le niveau de maladie résiduelle minimale chez un sujet
US10246701B2 (en) 2014-11-14 2019-04-02 Adaptive Biotechnologies Corp. Multiplexed digital quantitation of rearranged lymphoid receptors in a complex mixture
WO2016086029A1 (fr) 2014-11-25 2016-06-02 Adaptive Biotechnologies Corporation Caractérisation de la réponse immunitaire adaptative à la vaccination ou à l'infection à l'aide du séquençage du répertoire immunitaire
CA2976580A1 (fr) 2015-02-24 2016-09-01 Adaptive Biotechnologies Corp. Methodes pour le diagnostic d'une maladie infectieuse et la determination du statut hla a l'aide du sequencage du repertoire immunitaire
AU2016242967B2 (en) 2015-04-01 2021-07-01 Adaptive Biotechnologies Corp. Method of identifying human compatible T cell receptors specific for an antigenic target
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
WO2017106768A1 (fr) 2015-12-17 2017-06-22 Guardant Health, Inc. Procédés de détermination du nombre de copies du gène tumoral par analyse d'adn acellulaire
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
CN110678559B (zh) * 2017-08-31 2023-09-15 深圳华大智造科技股份有限公司 一种核酸探针以及一种核酸测序方法
CN111344416A (zh) 2017-09-01 2020-06-26 生命技术公司 用于免疫组库测序的组合物和方法
WO2019080725A1 (fr) * 2017-10-25 2019-05-02 深圳华大生命科学研究院 Méthode de séquençage d'acide nucléique et kit de séquençage d'acide nucléique
US11254980B1 (en) 2017-11-29 2022-02-22 Adaptive Biotechnologies Corporation Methods of profiling targeted polynucleotides while mitigating sequencing depth requirements
WO2020018836A1 (fr) 2018-07-18 2020-01-23 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
JP2023519919A (ja) * 2020-03-24 2023-05-15 オングストローム バイオ，インコーポレイテッド 病原体を検出するためのアッセイ
JP2024512608A (ja) 2021-03-24 2024-03-19 ジェネンテック， インコーポレイテッド Ｔリンパ球における効率的なｔｃｒ遺伝子編集
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
CN104195227B (zh) * 2008-11-07 2017-04-12 适应生物技术公司 通过序列分析监测状况的方法

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

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A4 Supplementary search report drawn up and despatched

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Ipc: C12Q 1/68 20060101AFI20151110BHEP

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