JP7651470B2 - 核酸を解析するための方法および組成物 - Google Patents

核酸を解析するための方法および組成物 Download PDF

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JP7651470B2
JP7651470B2 JP2021559245A JP2021559245A JP7651470B2 JP 7651470 B2 JP7651470 B2 JP 7651470B2 JP 2021559245 A JP2021559245 A JP 2021559245A JP 2021559245 A JP2021559245 A JP 2021559245A JP 7651470 B2 JP7651470 B2 JP 7651470B2
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nucleic acid
ssna
oligonucleotide
hybridization
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キンケイド, ケリー エム. ハーキンズ
コリン パトリック ノートン,
ヴァーシャ ラオ,
クリストファー ジェイ. トロル,
ジョシュア ディー. カップ,
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クラレット バイオサイエンス, エルエルシー
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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034Isolating an individual clone by screening libraries
    • C12N15/1093General methods of preparing gene libraries, not provided for in other subgroups
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034Isolating an individual clone by screening libraries
    • C12N15/1068Template (nucleic acid) mediated chemical library synthesis, e.g. chemical and enzymatical DNA-templated organic molecule synthesis, libraries prepared by non ribosomal polypeptide synthesis [NRPS], DNA/RNA-polymerase mediated polypeptide synthesis
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6806Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6869Methods for sequencing
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2330/00Production
    • C12N2330/30Production chemically synthesised
    • C12N2330/31Libraries, arrays

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
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  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
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  • General Health & Medical Sciences (AREA)
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  • Chemical Kinetics & Catalysis (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Plant Pathology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Enzymes And Modification Thereof (AREA)
JP2021559245A 2019-04-05 2020-04-02 核酸を解析するための方法および組成物 Active JP7651470B2 (ja)

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JP2024189679A JP2025014018A (ja) 2019-04-05 2024-10-29 核酸を解析するための方法および組成物

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US201962830211P 2019-04-05 2019-04-05
US62/830,211 2019-04-05
US201962861594P 2019-06-14 2019-06-14
US62/861,594 2019-06-14
US201962925132P 2019-10-23 2019-10-23
US62/925,132 2019-10-23
PCT/US2020/026421 WO2020206143A1 (en) 2019-04-05 2020-04-02 Methods and compositions for analyzing nucleic acid

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JP2022528139A JP2022528139A (ja) 2022-06-08
JP2022528139A5 JP2022528139A5 (https=) 2023-03-13
JPWO2020206143A5 JPWO2020206143A5 (https=) 2023-03-13
JP7651470B2 true JP7651470B2 (ja) 2025-03-26

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US (1) US20220348906A1 (https=)
EP (2) EP4538390A3 (https=)
JP (2) JP7651470B2 (https=)
KR (1) KR20210148304A (https=)
CN (1) CN114174530A (https=)
AU (1) AU2020253471A1 (https=)
CA (1) CA3134831A1 (https=)
IL (1) IL286945A (https=)
SG (1) SG11202110468YA (https=)
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Families Citing this family (23)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP7537748B2 (ja) 2018-06-06 2024-08-21 ザ リージェンツ オブ ザ ユニバーシティ オブ カリフォルニア 核酸ライブラリを生成する方法ならびにそれを実施するための組成物およびキット
EP3997242B1 (en) * 2019-07-09 2026-04-08 The Translational Genomics Research Institute Methods of detecting disease and treatment response in cfdna
US20230014607A1 (en) 2019-10-09 2023-01-19 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
CN110669830B (zh) * 2019-10-24 2023-05-23 裕策医疗器械江苏有限公司 一种低质量ffpe dna的处理方法、装置和存储介质
CN121344163A (zh) * 2020-01-16 2026-01-16 Dnae诊断有限公司 用于分离靶多核苷酸的组合物、试剂盒和方法
CA3186974A1 (en) * 2020-06-24 2021-12-30 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
WO2022020346A1 (en) 2020-07-21 2022-01-27 Claret Bioscience, Llc Cancer detection, monitoring, and reporting from sequencing cell-free dna
US20240395358A1 (en) 2020-10-08 2024-11-28 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
TW202242130A (zh) * 2020-12-29 2022-11-01 比利時商比利時意志有限公司 循環轉錄因子分析
CA3214206A1 (en) * 2021-03-31 2022-10-06 Carla SANMARTIN Nucleic acid library sequencing techniques with adapter dimer detection
CN115197998A (zh) * 2021-04-13 2022-10-18 广东菲鹏生物有限公司 一种单链核酸分子测序文库构建方法
GB2606158B (en) * 2021-04-26 2023-12-27 Wobble Genomics Ltd Amplification of single stranded DNA
US20240344056A1 (en) * 2021-06-04 2024-10-17 Somagenics, Inc. Improved method of sequencing library preparation for short dna
CN118401675A (zh) * 2021-10-15 2024-07-26 凯杰科学有限责任公司 制备dna文库的方法及其用途
WO2023158739A2 (en) * 2022-02-17 2023-08-24 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
US20260078439A1 (en) * 2022-08-24 2026-03-19 The Regents Of The University Of California Next-Generation Sequencing Pipeline for Detection of Ultrashort Single-Stranded Cell-Free DNA
WO2024054517A1 (en) * 2022-09-08 2024-03-14 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
CN116426607A (zh) * 2022-12-23 2023-07-14 南京诺唯赞生物科技股份有限公司 一种dna建库预混液
CN119998463A (zh) * 2023-03-20 2025-05-13 深圳华大智造科技股份有限公司 一种高效且快速进行核酸文库构建的方法
WO2024254073A1 (en) * 2023-06-07 2024-12-12 Claret Bioscience, Llc Methods and compositions for analyzing nucleic acid
WO2025049331A2 (en) 2023-08-31 2025-03-06 Illumina, Inc. Aptamer detection techniques
WO2025072689A1 (en) * 2023-09-28 2025-04-03 The Regents Of The University Of California Methods and compositions for producing sequencing libraries
WO2026058704A1 (ja) * 2024-09-10 2026-03-19 国立大学法人 東京大学 Dnaバーコード配列を含む一本鎖 dnaの合成方法(method for synthesizing single-stranded dna containing dna barcode sequences)

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2014164466A1 (en) 2013-03-12 2014-10-09 E. I. Du Pont De Nemours And Company Methods for the identification of variant recognition sites for rare-cutting engineered double-strand-break-inducing agents and compositions and uses thereof
JP2014528713A (ja) 2011-09-07 2014-10-30 エックス−ケム インコーポレイテッド Dnaコードライブラリーをタグ付けするための方法
JP2015521468A (ja) 2012-06-18 2015-07-30 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

Family Cites Families (22)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6927028B2 (en) 2001-08-31 2005-08-09 Chinese University Of Hong Kong Non-invasive methods for detecting non-host DNA in a host using epigenetic differences between the host and non-host DNA
EP1817430B1 (en) 2004-11-29 2009-09-16 Klinikum der Universität Regensburg Means and methods for detecting methylated dna
EP3260556B1 (en) 2006-05-31 2019-07-31 Sequenom, Inc. Methods for the extraction of nucleic acid from a sample
AU2007260750A1 (en) 2006-06-16 2007-12-21 Sequenom, Inc. Methods and compositions for the amplification, detection and quantification of nucleic acid from a sample
WO2009032781A2 (en) 2007-08-29 2009-03-12 Sequenom, Inc. Methods and compositions for universal size-specific polymerase chain reaction
WO2009032779A2 (en) 2007-08-29 2009-03-12 Sequenom, Inc. Methods and compositions for the size-specific seperation of nucleic acid from a sample
WO2009120808A2 (en) 2008-03-26 2009-10-01 Sequenom, Inc. Restriction endonuclease enhanced polymorphic sequence detection
US8476013B2 (en) 2008-09-16 2013-07-02 Sequenom, Inc. Processes and compositions for methylation-based acid enrichment of fetal nucleic acid from a maternal sample useful for non-invasive prenatal diagnoses
EP3770255A1 (en) 2008-09-16 2021-01-27 Sequenom, Inc. Processes and compositions for methylation-based enrichment of fetal nucleic acid from a maternal sample useful for non-invasive prenatal diagnoses
EP3514244B1 (en) 2009-04-03 2021-07-07 Sequenom, Inc. Nucleic acid preparation methods
WO2011143659A2 (en) 2010-05-14 2011-11-17 Fluidigm Corporation Nucleic acid isolation methods
US9139874B2 (en) 2011-07-07 2015-09-22 Life Technologies Corporation Bi-directional sequencing compositions and methods
EP3299476B1 (en) 2013-09-05 2023-07-19 The Jackson Laboratory Compositions for rna-chromatin interaction analysis and uses thereof
CN105441429A (zh) * 2014-08-08 2016-03-30 深圳华大基因科技有限公司 一种制备腺苷酰化接头的方法及腺苷酰化接头
US11014957B2 (en) * 2015-12-21 2021-05-25 Realseq Biosciences, Inc. Methods of library construction for polynucleotide sequencing
US11299780B2 (en) * 2016-07-15 2022-04-12 The Regents Of The University Of California Methods of producing nucleic acid libraries
JP7062681B2 (ja) * 2017-03-20 2022-05-06 イルミナ インコーポレイテッド 核酸ライブラリを調製するための方法および組成物
EP4134444B1 (en) * 2017-03-23 2024-10-02 University of Washington Methods for targeted nucleic acid sequence enrichment with applications to error corrected nucleic acid sequencing
US11198865B2 (en) 2017-11-02 2021-12-14 Amanda Raine Splinted ligation adapter tagging
WO2019222523A2 (en) 2018-05-16 2019-11-21 Bio-Rad Laboratories, Inc. Methods for processing nucleic acid samples
JP7537748B2 (ja) * 2018-06-06 2024-08-21 ザ リージェンツ オブ ザ ユニバーシティ オブ カリフォルニア 核酸ライブラリを生成する方法ならびにそれを実施するための組成物およびキット
AU2019282812B2 (en) 2018-06-07 2025-08-14 Arc Bio, Llc Compositions and methods for making guide nucleic acids

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2014528713A (ja) 2011-09-07 2014-10-30 エックス−ケム インコーポレイテッド Dnaコードライブラリーをタグ付けするための方法
JP2015521468A (ja) 2012-06-18 2015-07-30 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
WO2014164466A1 (en) 2013-03-12 2014-10-09 E. I. Du Pont De Nemours And Company Methods for the identification of variant recognition sites for rare-cutting engineered double-strand-break-inducing agents and compositions and uses thereof

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
Nucleic Acids Research,2017年,vol.45,no.6,e36,1-15

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JP2025014018A (ja) 2025-01-28
IL286945A (en) 2021-12-01
KR20210148304A (ko) 2021-12-07
AU2020253471A1 (en) 2021-10-14
SG11202110468YA (en) 2021-10-28
EP3947723C0 (en) 2024-12-18
CN114174530A (zh) 2022-03-11
WO2020206143A1 (en) 2020-10-08
EP3947723B1 (en) 2024-12-18
EP3947723A1 (en) 2022-02-09
WO2020206143A9 (en) 2021-12-23
EP4538390A2 (en) 2025-04-16
CA3134831A1 (en) 2020-10-08
EP4538390A3 (en) 2025-07-09
US20220348906A1 (en) 2022-11-03
JP2022528139A (ja) 2022-06-08

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