CA2957633A1 - Digital measurements from targeted sequencing - Google Patents

Digital measurements from targeted sequencing Download PDF

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Publication number
CA2957633A1
CA2957633A1 CA2957633A CA2957633A CA2957633A1 CA 2957633 A1 CA2957633 A1 CA 2957633A1 CA 2957633 A CA2957633 A CA 2957633A CA 2957633 A CA2957633 A CA 2957633A CA 2957633 A1 CA2957633 A1 CA 2957633A1
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CA
Canada
Prior art keywords
probe
sequence
nucleic acid
specific nucleic
read
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
CA2957633A
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English (en)
French (fr)
Inventor
Jonathan Scolnick
Douglas Amorese
Stephanie C. HUELGA
Benjamin Schroeder
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.)
Tecan Genomics Inc
Original Assignee
Nugen Technologies 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 Nugen Technologies Inc filed Critical Nugen Technologies Inc
Publication of CA2957633A1 publication Critical patent/CA2957633A1/en
Abandoned legal-status Critical Current

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    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/158—Expression markers

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Physics & Mathematics (AREA)
  • Analytical Chemistry (AREA)
  • Organic Chemistry (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Immunology (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Medical Informatics (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Molecular Biology (AREA)
  • General Engineering & Computer Science (AREA)
  • Pathology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Bioethics (AREA)
  • Databases & Information Systems (AREA)
  • Oncology (AREA)
  • Hospice & Palliative Care (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
CA2957633A 2014-08-06 2015-08-06 Digital measurements from targeted sequencing Abandoned CA2957633A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201462034043P 2014-08-06 2014-08-06
US62/034,043 2014-08-06
PCT/US2015/044065 WO2016022833A1 (en) 2014-08-06 2015-08-06 Digital measurements from targeted sequencing

Publications (1)

Publication Number Publication Date
CA2957633A1 true CA2957633A1 (en) 2016-02-11

Family

ID=55264574

Family Applications (1)

Application Number Title Priority Date Filing Date
CA2957633A Abandoned CA2957633A1 (en) 2014-08-06 2015-08-06 Digital measurements from targeted sequencing

Country Status (7)

Country Link
US (2) US10102337B2 (enExample)
EP (1) EP3177740B1 (enExample)
JP (1) JP6803327B2 (enExample)
CN (1) CN107075581B (enExample)
CA (1) CA2957633A1 (enExample)
SG (1) SG11201700891SA (enExample)
WO (1) WO2016022833A1 (enExample)

Families Citing this family (35)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2012242847B2 (en) 2011-04-15 2017-01-19 The Johns Hopkins University Safe sequencing system
US20150011396A1 (en) 2012-07-09 2015-01-08 Benjamin G. Schroeder Methods for creating directional bisulfite-converted nucleic acid libraries for next generation sequencing
ES2701742T3 (es) 2012-10-29 2019-02-25 Univ Johns Hopkins Prueba de Papanicolaou para cánceres de ovario y de endometrio
EP3561072A1 (en) 2012-12-10 2019-10-30 Resolution Bioscience, Inc. Methods for targeted genomic analysis
WO2014144092A1 (en) 2013-03-15 2014-09-18 Nugen Technologies, Inc. Sequential sequencing
CA2929596C (en) 2013-11-13 2022-07-05 Nugen Technologies, Inc. Compositions and methods for identification of a duplicate sequencing read
CN107075581B (zh) 2014-08-06 2022-03-18 纽亘技术公司 由靶向测序进行数字测量
US20160053301A1 (en) 2014-08-22 2016-02-25 Clearfork Bioscience, Inc. Methods for quantitative genetic analysis of cell free dna
WO2018176007A1 (en) * 2017-03-23 2018-09-27 BioSpyder Technologies, Inc. Modulation of targets in cellular pathways identified by resolution of stochastic gene expression
CA2994601C (en) 2015-08-06 2020-08-25 F. Hoffmann-La Roche Ag Target enrichment by single probe primer extension
WO2017027653A1 (en) 2015-08-11 2017-02-16 The Johns Hopkins University Assaying ovarian cyst fluid
CA3004435A1 (en) 2015-11-11 2017-05-18 Resolution Bioscience, Inc. High efficiency construction of dna libraries
ES2898088T3 (es) 2016-06-01 2022-03-03 Hoffmann La Roche Inmuno-PETE
CN106048009B (zh) * 2016-06-03 2020-02-18 人和未来生物科技（长沙）有限公司 一种用于超低频基因突变检测的标签接头及其应用
KR101969905B1 (ko) * 2016-06-20 2019-04-17 한국표준과학연구원 염기서열분석을 위한 라이브러리용 프라이머 세트 및 라이브러리 제조방법
JP7217224B2 (ja) * 2016-08-25 2023-02-02 レゾリューション バイオサイエンス， インコーポレイテッド Ｄｎａ試料中のゲノムコピー変化の検出方法
US10190155B2 (en) 2016-10-14 2019-01-29 Nugen Technologies, Inc. Molecular tag attachment and transfer
US12297491B2 (en) 2017-03-08 2025-05-13 Roche Sequencing Solutions, Inc. Primer extension target enrichment and improvements thereto including simultaneous enrichment of DNA and RNA
CN110352251A (zh) 2017-03-08 2019-10-18 豪夫迈·罗氏有限公司 引物延伸靶标富集及对其的包括同时富集dna和rna的改进
US12492430B2 (en) 2017-04-11 2025-12-09 Tecan Genomics, Inc. Library quantitation and qualification
CN120400338A (zh) 2017-08-07 2025-08-01 约翰斯霍普金斯大学 用于评估和治疗癌症的方法和材料
US20200239932A1 (en) * 2017-10-16 2020-07-30 The Regents Of The University Of California Efficient screening library preparation
US11099202B2 (en) 2017-10-20 2021-08-24 Tecan Genomics, Inc. Reagent delivery system
EP4289996B1 (en) * 2017-11-06 2026-02-11 Illumina Inc. Nucleic acid indexing techniques
US10985407B2 (en) 2017-11-21 2021-04-20 Samsung Electronics Co., Ltd. All-solid-state secondary battery including anode active material alloyable with lithium and method of charging the same
EP3524695B1 (en) * 2018-02-13 2022-07-20 Personal Genomics S.r.l. Method for the enrichment of genomic regions
AU2019321683B2 (en) * 2018-08-17 2025-04-03 Dana-Farber Cancer Institute, Inc. DNA amplification method for probe generation
CN110699426B (zh) * 2019-01-02 2022-01-28 上海臻迪基因科技有限公司 基因目标区域富集方法及试剂盒
CA3153256A1 (en) * 2019-09-06 2021-03-11 Honeycomb Biotechnologies, Inc. Methods and systems for rna-seq profiling
EP3851542A1 (en) 2020-01-20 2021-07-21 Tecan Genomics, Inc. Depletion of abundant uninformative sequences
CN113275053A (zh) 2020-02-03 2021-08-20 帝肯基因组学公司 试剂存储系统
IL295297A (en) 2020-02-14 2022-10-01 Univ Johns Hopkins Methods and materials for assessing nucleic acids
CN113593636B (zh) * 2020-04-30 2024-05-03 深圳市真迈生物科技有限公司 测序结果分析方法、系统及计算机可读存储介质和电子设备
CN116075596A (zh) * 2020-08-07 2023-05-05 牛津纳米孔科技公开有限公司 鉴定核酸条形码的方法
WO2023066255A1 (zh) * 2021-10-18 2023-04-27 深圳市真迈生物科技有限公司 测序方法、测序数据处理方法、设备和计算机设备

Family Cites Families (152)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4925065A (en) 1987-01-02 1990-05-15 Helena Laboratories Corporation Dispensing apparatus
CA1340807C (en) 1988-02-24 1999-11-02 Lawrence T. Malek Nucleic acid amplification process
CA2013317A1 (en) 1989-04-17 1990-10-17 Fred T. Oakes Diagnostic kit, primer composition and their use for replication or detection of nucleic acids
WO1992007951A1 (en) 1990-10-19 1992-05-14 Yoke Wah Kow Quantitation of aldehyde-containing lesions in nucleic acids
US5518900A (en) 1993-01-15 1996-05-21 Molecular Tool, Inc. Method for generating single-stranded DNA molecules
IL104965A (en) 1992-03-05 1999-11-30 Isis Pharmaceuticals Inc Coupled oligonucleotides cross-linked
CA2140081C (en) 1994-01-13 2008-04-01 Dean L. Engelhardt Process, construct and conjugate for producing multiple nucleic acid copies
US6110709A (en) 1994-03-18 2000-08-29 The General Hospital Corporation Cleaved amplified modified polymorphic sequence detection methods
US5750341A (en) 1995-04-17 1998-05-12 Lynx Therapeutics, Inc. DNA sequencing by parallel oligonucleotide extensions
WO1996040998A1 (en) 1995-06-07 1996-12-19 Pioneer Hi-Bred International, Inc. PCR-BASED cDNA SUBTRACTIVE CLONING METHOD
JP3790797B2 (ja) 1995-07-11 2006-06-28 フォーファス グリコシラーゼによる候補座位のヌクレオチド配列の検出
US6190865B1 (en) 1995-09-27 2001-02-20 Epicentre Technologies Corporation Method for characterizing nucleic acid molecules
GB9600384D0 (en) 1996-01-09 1996-03-13 Nyfotek As Dna glycosylases
JP2000516468A (ja) 1996-08-14 2000-12-12 ライフ テクノロジーズ，インコーポレイテッド 核酸増幅および配列決定のための安定な組成物
US6449562B1 (en) 1996-10-10 2002-09-10 Luminex Corporation Multiplexed analysis of clinical specimens apparatus and method
IL120337A0 (en) 1997-02-27 1997-06-10 Gesher Israel Advanced Biotecs Method for joining DNA fragments
EP1591541B1 (en) 1997-04-01 2012-02-15 Illumina Cambridge Limited Method of nucleic acid sequencing
CA2268368A1 (en) 1997-08-28 1999-03-11 The Perkin-Elmer Corporation Improved detection of mutations in nucleic acids by chemical cleavage
AU9660698A (en) 1997-08-29 1999-03-16 Osvaldo J. Lopez Dna methyltransferase genotyping
CA2308599C (en) 1997-10-28 2012-05-22 The Regents Of The University Of California Dna polymorphism identity determination using flow cytometry
US6365346B1 (en) 1998-02-18 2002-04-02 Dade Behring Inc. Quantitative determination of nucleic acid amplification products
ATE214104T1 (de) 1998-04-22 2002-03-15 Entpr Ie Trd As Bioresearch Ie Verfahren zur charakterisierung von nukleinsäuremolekulen, das die erzeugung von verlängerbaren aufwärtsgelegenen dns-fragmenten, die durch spaltung der nukleinsäure an einer abasischen stelle entsteht, umfasst
US7875440B2 (en) 1998-05-01 2011-01-25 Arizona Board Of Regents Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
GB0002310D0 (en) 2000-02-01 2000-03-22 Solexa Ltd Polynucleotide sequencing
GB9817055D0 (en) 1998-08-05 1998-09-30 Medical Res Council Reverse transcription and amplification processes and primers therefore
US6232067B1 (en) 1998-08-17 2001-05-15 The Perkin-Elmer Corporation Adapter directed expression analysis
AR021833A1 (es) 1998-09-30 2002-08-07 Applied Research Systems Metodos de amplificacion y secuenciacion de acido nucleico
AU2397400A (en) 1998-12-30 2000-07-31 Dana-Farber Cancer Institute, Inc. Mutation scanning array, and methods of use thereof
US7074556B2 (en) 1999-03-02 2006-07-11 Invitrogen Corporation cDNA synthesis improvements
CA2362771A1 (en) 1999-03-12 2000-09-21 Amersham Pharmacia Biotech Uk Limited Genetic analysis
WO2000070039A1 (en) 1999-05-17 2000-11-23 Mcgill University METHOD FOR SUBTRACTING cDNAs BY SUPPRESSING THE SYNTHESIS OF SPECIFICALLY TARGETED mRNAs
US6225109B1 (en) 1999-05-27 2001-05-01 Orchid Biosciences, Inc. Genetic analysis device
US7501245B2 (en) 1999-06-28 2009-03-10 Helicos Biosciences Corp. Methods and apparatuses for analyzing polynucleotide sequences
CA2384838C (en) 1999-09-13 2006-07-18 Nugen Technologies, Inc. Methods and compositions for linear isothermal amplification of polynucleotide sequences
US7244559B2 (en) 1999-09-16 2007-07-17 454 Life Sciences Corporation Method of sequencing a nucleic acid
US7211390B2 (en) 1999-09-16 2007-05-01 454 Life Sciences Corporation Method of sequencing a nucleic acid
US6617442B1 (en) 1999-09-30 2003-09-09 Isis Pharmaceuticals, Inc. Human Rnase H1 and oligonucleotide compositions thereof
US6958225B2 (en) 1999-10-27 2005-10-25 Affymetrix, Inc. Complexity management of genomic DNA
EP1244812A1 (en) 1999-12-21 2002-10-02 LION Bioscience AG Branched compound for use in nucleic acid detection and analysis reactions
US7205129B1 (en) 2000-02-28 2007-04-17 Qiagen Gmbh Method for reducing artifacts in nucleic acid amplification
US6936702B2 (en) 2000-06-07 2005-08-30 Li-Cor, Inc. Charge-switch nucleotides
ATE455186T1 (de) 2000-06-26 2010-01-15 Nugen Technologies Inc Methoden und zusammensetzungen zur auf transkription basierenden vervielfältigung von nukleinsäuren
WO2002028876A2 (en) 2000-10-05 2002-04-11 Riken Oligonucleotide linkers comprising a variable cohesive portion and method for the preparation of polynucleotide libraries by using said linkers.
CA2423729A1 (en) 2000-10-06 2002-04-11 Nugen Technologies, Inc. Methods and probes for detection and/or quantification of nucleic acid sequences
IE20000887A1 (en) 2000-11-03 2002-12-11 Univ College Cork Nat Univ Ie Method for the amplification and optional characterisation of nucleic acids
WO2002048402A2 (en) 2000-12-13 2002-06-20 Nugen Technologies, Inc. Methods and compositions for generation of multiple copies of nucleic acid sequences and methods of detection thereof
US6893820B1 (en) 2001-01-31 2005-05-17 The Ohio State University Research Foundation Detection of methylated CpG rich sequences diagnostic for malignant cells
KR20030082535A (ko) 2001-03-09 2003-10-22 뉴젠 테크놀로지스 인코포레이티드 Ｒｎａ 서열의 증폭을 위한 방법 및 조성물
CA2439074A1 (en) 2001-03-09 2002-09-19 Nugen Technologies, Inc. Methods and compositions for amplification of rna sequences
WO2002081753A1 (en) 2001-04-04 2002-10-17 Advanced Research & Technology Institute Method for identifying and characterizing individual dna molecules
FR2824335A1 (fr) 2001-05-04 2002-11-08 Bio Merieux Procede de marquage et de fragmentation d'adn
CA2453864A1 (en) 2001-06-27 2003-01-09 F. Hoffmann-La Roche Ag A walk-through technique for in vitro recombination of polynucleotide sequences
JP2006500901A (ja) 2001-09-26 2006-01-12 エピジェンクス ファーマスーティカルズ、 インコーポレイテッド Ｄｎａメチル化変化のアッセイ
JP2004148509A (ja) 2001-10-04 2004-05-27 Seiko Epson Corp 液体噴射ヘッド
AU2003222269A1 (en) 2002-03-11 2003-09-29 Nugen Technologies, Inc. Methods for generating double stranded dna comprising a 3' single stranded portion and uses of these complexes for recombination
CA2480525A1 (en) 2002-03-29 2003-10-09 Nugen Technologies, Inc. Single primer isothermal nucleic acid amplification-enhanced analyte detection and quantification
US6887709B2 (en) 2002-05-09 2005-05-03 Lifescan, Inc. Devices, systems and methods for the containment and use of liquid solutions
CA2486283A1 (en) 2002-05-17 2004-02-05 Nugen Technologies, Inc. Methods for fragmentation, labeling and immobilization of nucleic acids
US7108976B2 (en) 2002-06-17 2006-09-19 Affymetrix, Inc. Complexity management of genomic DNA by locus specific amplification
US7704687B2 (en) 2002-11-15 2010-04-27 The Johns Hopkins University Digital karyotyping
US7414117B2 (en) 2002-12-26 2008-08-19 Ngk Insulators, Ltd. Nucleotide derivative and DNA microarray
CA2513889A1 (en) 2003-01-29 2004-08-19 454 Corporation Double ended sequencing
US7745116B2 (en) 2003-04-08 2010-06-29 Pacific Biosciences Of California, Inc. Composition and method for nucleic acid sequencing
JP2006523465A (ja) 2003-04-14 2006-10-19 ニューゲン テクノロジーズ， インコーポレイテッド ランダムにプライミングされる複合プライマーを用いる大規模増幅
WO2005038427A2 (en) * 2003-06-05 2005-04-28 Medical Gene Center Ltd. Rapid identification of viruses of the upper respiratory tract infection including sars causing coronus viruses
US7169560B2 (en) 2003-11-12 2007-01-30 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
CA2552007A1 (en) 2003-12-29 2005-07-21 Nugen Technologies, Inc. Methods for analysis of nucleic acid methylation status and methods for fragmentation, labeling and immobilization of nucleic acids
US7462452B2 (en) 2004-04-30 2008-12-09 Pacific Biosciences Of California, Inc. Field-switch sequencing
US20060024711A1 (en) 2004-07-02 2006-02-02 Helicos Biosciences Corporation Methods for nucleic acid amplification and sequence determination
US7361468B2 (en) 2004-07-02 2008-04-22 Affymetrix, Inc. Methods for genotyping polymorphisms in humans
US7276720B2 (en) 2004-07-19 2007-10-02 Helicos Biosciences Corporation Apparatus and methods for analyzing samples
US20060024678A1 (en) 2004-07-28 2006-02-02 Helicos Biosciences Corporation Use of single-stranded nucleic acid binding proteins in sequencing
US7170050B2 (en) 2004-09-17 2007-01-30 Pacific Biosciences Of California, Inc. Apparatus and methods for optical analysis of molecules
US20060062531A1 (en) 2004-09-17 2006-03-23 Stephen Turner Fabrication of optical confinements
CA2588122A1 (en) 2004-11-16 2006-05-26 Helicos Biosciences Corporation Tirf single molecule analysis and method of sequencing nucleic acids
WO2006081222A2 (en) 2005-01-25 2006-08-03 Compass Genetics, Llc. Isothermal dna amplification
US7462468B1 (en) 2005-01-28 2008-12-09 Pacific Biosciences Of California, Inc. DNA intercalating agents and methods of use
AU2006211150A1 (en) 2005-01-31 2006-08-10 Pacific Biosciences Of California, Inc. Use of reversible extension terminator in nucleic acid sequencing
US20060286566A1 (en) 2005-02-03 2006-12-21 Helicos Biosciences Corporation Detecting apparent mutations in nucleic acid sequences
WO2006086668A2 (en) 2005-02-09 2006-08-17 Epicentre Technologies Compositions and methods employing 5'-phosphate-dependent nucleic acid exonucleases
ATE510930T1 (de) 2005-08-02 2011-06-15 Rubicon Genomics Inc Zusammensetzungen und verfahren zur bearbeitung und amplifikation von dna mit verwendung mehrerer enzyme in einer einzigen reaktion
US20090137415A1 (en) 2005-08-05 2009-05-28 Euclid Diagnostics Llc SUBTRACTIVE SEPARATION AND AMPLIFICATION OF NON-RIBOSOMAL TRANSCRIBED RNA (nrRNA)
US7939258B2 (en) 2005-09-07 2011-05-10 Nugen Technologies, Inc. Nucleic acid amplification procedure using RNA and DNA composite primers
US7405281B2 (en) 2005-09-29 2008-07-29 Pacific Biosciences Of California, Inc. Fluorescent nucleotide analogs and uses therefor
GB0522310D0 (en) 2005-11-01 2005-12-07 Solexa Ltd Methods of preparing libraries of template polynucleotides
US20070141604A1 (en) 2005-11-15 2007-06-21 Gormley Niall A Method of target enrichment
WO2008115185A2 (en) 2006-04-24 2008-09-25 Nimblegen Systems, Inc. Use of microarrays for genomic representation selection
US20080269476A1 (en) 2006-04-26 2008-10-30 Helicos Biosciences Corporation Molecules and methods for nucleic acid sequencing
EP2079838A1 (en) 2006-05-16 2009-07-22 NuGEN Technologies, Inc. Nucleic acid separation and purification method based on reversible charge interactions
EP2038429B1 (en) 2006-06-30 2013-08-21 Nugen Technologies, Inc. Methods for fragmentation and labeling of nucleic acids
EP2049682A2 (en) 2006-07-31 2009-04-22 Illumina Cambridge Limited Method of library preparation avoiding the formation of adaptor dimers
WO2008033442A2 (en) 2006-09-12 2008-03-20 The Board Of Trustees Of The Leland Stanford Junior University Methods and compositions for performing low background multiplex nucleic acid amplification reactions
US8262900B2 (en) 2006-12-14 2012-09-11 Life Technologies Corporation Methods and apparatus for measuring analytes using large scale FET arrays
WO2008093098A2 (en) 2007-02-02 2008-08-07 Illumina Cambridge Limited Methods for indexing samples and sequencing multiple nucleotide templates
WO2008112653A1 (en) 2007-03-09 2008-09-18 Dxtech, Llc Electrochemical detection system
WO2008137661A1 (en) 2007-05-03 2008-11-13 Helicos Biosciences Corporation Methods and compositions for sequencing a nucleic acid
US9248076B2 (en) 2007-05-16 2016-02-02 Mystic Pharmaceuticals, Inc. Dose dispensing containers
US8182993B2 (en) 2007-06-06 2012-05-22 Pacific Biosciences Of California, Inc. Methods and processes for calling bases in sequence by incorporation methods
AR066922A1 (es) * 2007-06-08 2009-09-23 Monsanto Technology Llc Metodos de mejoramiento molecular del germoplasma de una planta por secuenciamiento dirigido
JP2010534474A (ja) 2007-07-26 2010-11-11 パシフィック バイオサイエンシーズ オブ カリフォルニア， インコーポレイテッド 分子冗長配列決定
EP2053132A1 (en) 2007-10-23 2009-04-29 Roche Diagnostics GmbH Enrichment and sequence analysis of geomic regions
WO2009102896A2 (en) 2008-02-12 2009-08-20 Nugen Technologies, Inc. Isothermal nucleic acid amplification methods and compositions
GB0804690D0 (en) 2008-03-13 2008-04-16 Netherlands Cancer Inst The Method
GB2470672B (en) 2008-03-21 2012-09-12 Nugen Technologies Inc Methods of RNA amplification in the presence of DNA
EP3269824A1 (en) 2008-03-28 2018-01-17 Pacific Biosciences Of California, Inc. Compositions and methods for nucleic acid sequencing
WO2009120374A2 (en) 2008-03-28 2009-10-01 Pacific Biosciences Of California, Inc. Methods and compositions for nucleic acid sample preparation
WO2010003153A2 (en) 2008-07-03 2010-01-07 Life Technologies Corporation Methylation analysis of mate pairs
JP5221248B2 (ja) 2008-08-26 2013-06-26 株式会社日立ハイテクノロジーズ 高発現遺伝子由来のｃＤＮＡクローンの含有率を低減させたｃＤＮＡライブラリーの作製方法
CN102203273A (zh) 2008-09-09 2011-09-28 生命技术公司 生成基因特异性的文库的方法
WO2010039991A2 (en) 2008-10-02 2010-04-08 The Texas A&M University System Method of generating informative dna templates for high-throughput sequencing applications
US20110287492A1 (en) 2008-12-04 2011-11-24 Keygene N.V. Method for the reduction of repetitive sequences in adapter-ligated restriction fragments
GB2465986A (en) 2008-12-04 2010-06-09 Angeletti P Ist Richerche Bio Method of generating diversity in polynucleotide sequences
CA2750547C (en) 2009-01-22 2018-07-03 Quanta Biosciences Methods for enrichment of selected rna molecules
US20120107811A1 (en) 2009-02-06 2012-05-03 Kelso David M Burstable liquid packaging and uses thereof
DK2414547T3 (da) 2009-04-02 2014-06-16 Fluidigm Corp Multiprimer-amplifikationsmetode til stregkodning af målnukleinsyrer
WO2010129937A2 (en) 2009-05-08 2010-11-11 Life Technologies Corporation Methods for detecting genetic variations in dna samples
EP2272976A1 (en) 2009-07-06 2011-01-12 Max-Planck-Gesellschaft zur Förderung der Wissenschaften e.V. Method for differentiation of polynucleotide strands
GB0912909D0 (en) 2009-07-23 2009-08-26 Olink Genomics Ab Probes for specific analysis of nucleic acids
WO2011019964A1 (en) 2009-08-12 2011-02-17 Nugen Technologies, Inc. Methods, compositions, and kits for generating nucleic acid products substantially free of template nucleic acid
US20110189679A1 (en) 2009-09-11 2011-08-04 Nugen Technologies, Inc. Compositions and methods for whole transcriptome analysis
WO2011053987A1 (en) 2009-11-02 2011-05-05 Nugen Technologies, Inc. Compositions and methods for targeted nucleic acid sequence selection and amplification
ITRM20100293A1 (it) 2010-05-31 2011-12-01 Consiglio Nazionale Ricerche Metodo per la preparazione e amplificazione di librerie rappresentative di cdna per il sequenziamento massivo, loro uso, kit e cartucce per kit di automazione
CN103119439A (zh) 2010-06-08 2013-05-22 纽亘技术公司 用于多重测序的方法和组合物
GB201012748D0 (en) 2010-07-29 2010-09-15 Univ St Andrews Improved RACE
EP2619327B1 (en) 2010-09-21 2014-10-22 Population Genetics Technologies LTD. Increasing confidence of allele calls with molecular counting
WO2012054873A2 (en) 2010-10-22 2012-04-26 Cold Spring Harbor Laboratory Varietal counting of nucleic acids for obtaining genomic copy number information
US8829171B2 (en) * 2011-02-10 2014-09-09 Illumina, Inc. Linking sequence reads using paired code tags
EP2635679B1 (en) 2010-11-05 2017-04-19 Illumina, Inc. Linking sequence reads using paired code tags
WO2012103154A1 (en) 2011-01-24 2012-08-02 Nugen Technologies, Inc. Stem-loop composite rna-dna adaptor-primers: compositions and methods for library generation, amplification and other downstream manipulations
EP2675819B1 (en) 2011-02-18 2020-04-08 Bio-Rad Laboratories, Inc. Compositions and methods for molecular labeling
US9074204B2 (en) 2011-05-20 2015-07-07 Fluidigm Corporation Nucleic acid encoding reactions
SG10201510189WA (en) 2011-10-19 2016-01-28 Nugen Technologies Inc Compositions And Methods For Directional Nucleic Acid Amplification And Sequencing
WO2013059740A1 (en) 2011-10-21 2013-04-25 Foundation Medicine, Inc. Novel alk and ntrk1 fusion molecules and uses thereof
SG11201404243WA (en) 2012-01-26 2014-08-28 Nugen Technologies Inc Compositions and methods for targeted nucleic acid sequence enrichment and high efficiency library generation
US11177020B2 (en) 2012-02-27 2021-11-16 The University Of North Carolina At Chapel Hill Methods and uses for molecular tags
EP2825675B1 (en) 2012-03-13 2017-12-27 Patel, Abhijit Ajit Measurement of nucleic acid variants using highly-multiplexed error-suppressed deep sequencing
US8209130B1 (en) * 2012-04-04 2012-06-26 Good Start Genetics, Inc. Sequence assembly
US9968901B2 (en) 2012-05-21 2018-05-15 The Scripps Research Institute Methods of sample preparation
JP6181751B2 (ja) 2012-06-18 2017-08-16 ニューゲン テクノロジーズ， インコーポレイテッド 望まれない核酸配列のネガティブ選択のための組成物および方法
US11261494B2 (en) * 2012-06-21 2022-03-01 The Chinese University Of Hong Kong Method of measuring a fractional concentration of tumor DNA
WO2014028778A1 (en) * 2012-08-15 2014-02-20 Natera, Inc. Methods and compositions for reducing genetic library contamination
DE202013012824U1 (de) 2012-09-04 2020-03-10 Guardant Health, Inc. Systeme zum Erfassen von seltenen Mutationen und einer Kopienzahlvariation
CA2892617C (en) 2012-11-26 2017-01-24 The University Of Toledo Methods for standardized sequencing of nucleic acids and uses thereof
US20140274729A1 (en) 2013-03-15 2014-09-18 Nugen Technologies, Inc. Methods, compositions and kits for generation of stranded rna or dna libraries
WO2014144092A1 (en) 2013-03-15 2014-09-18 Nugen Technologies, Inc. Sequential sequencing
US9567645B2 (en) 2013-08-28 2017-02-14 Cellular Research, Inc. Massively parallel single cell analysis
DE14853999T1 (de) 2013-10-15 2017-02-16 Jesse, Ryan Hancock Verwirbelungsdüse mit steuerbarer geschwindigkeit
CA2929596C (en) * 2013-11-13 2022-07-05 Nugen Technologies, Inc. Compositions and methods for identification of a duplicate sequencing read
GB201320542D0 (en) 2013-11-21 2014-01-01 Randox Lab Ltd Assay fluid delivery system
US9745614B2 (en) 2014-02-28 2017-08-29 Nugen Technologies, Inc. Reduced representation bisulfite sequencing with diversity adaptors
CN107075581B (zh) 2014-08-06 2022-03-18 纽亘技术公司 由靶向测序进行数字测量
US9527077B2 (en) 2015-01-29 2016-12-27 David W. Wright Diagnostic cartridge, fluid storage and delivery apparatus therefor and methods of construction thereof

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