CA2921603C - Methods and compositions for cdna synthesis and single-cell transcriptome profiling using template switching reaction - Google Patents

Methods and compositions for cdna synthesis and single-cell transcriptome profiling using template switching reaction Download PDF

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CA2921603C
CA2921603C CA2921603A CA2921603A CA2921603C CA 2921603 C CA2921603 C CA 2921603C CA 2921603 A CA2921603 A CA 2921603A CA 2921603 A CA2921603 A CA 2921603A CA 2921603 C CA2921603 C CA 2921603C
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smarter
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CA2921603A1 (en
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Rickard Sandberg
Simone Picelli
Omid R. Faridani
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Ludwig Institute for Cancer Research Ltd
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    • 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
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1096—Processes for the isolation, preparation or purification of DNA or RNA cDNA Synthesis; Subtracted cDNA library construction, e.g. RT, RT-PCR
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12P—FERMENTATION OR ENZYME-USING PROCESSES TO SYNTHESISE A DESIRED CHEMICAL COMPOUND OR COMPOSITION OR TO SEPARATE OPTICAL ISOMERS FROM A RACEMIC MIXTURE
    • C12P19/00—Preparation of compounds containing saccharide radicals
    • C12P19/26—Preparation of nitrogen-containing carbohydrates
    • C12P19/28—N-glycosides
    • C12P19/30—Nucleotides
    • C12P19/34—Polynucleotides, e.g. nucleic acids, oligoribonucleotides
    • 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
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6853—Nucleic acid amplification reactions using modified primers or templates
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00—Libraries per se, e.g. arrays, mixtures
    • C40B40/04—Libraries containing only organic compounds
    • C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof
    • C40B40/08—Libraries containing RNA or DNA which encodes proteins, e.g. gene libraries
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B50/00—Methods of creating libraries, e.g. combinatorial synthesis
    • C40B50/06—Biochemical methods, e.g. using enzymes or whole viable microorganisms
    • 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

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Genetics & Genomics (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • Biochemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Microbiology (AREA)
  • General Health & Medical Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Biomedical Technology (AREA)
  • Immunology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • General Chemical & Material Sciences (AREA)
  • Plant Pathology (AREA)
  • Medicinal Chemistry (AREA)
  • Pathology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
CA2921603A 2013-08-23 2014-08-22 Methods and compositions for cdna synthesis and single-cell transcriptome profiling using template switching reaction Active CA2921603C (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201361869220P 2013-08-23 2013-08-23
US61/869,220 2013-08-23
PCT/US2014/052233 WO2015027135A1 (en) 2013-08-23 2014-08-22 Methods and compositions for cdna synthesis and single-cell transcriptome profiling using template switching reaction

Publications (2)

Publication Number Publication Date
CA2921603A1 CA2921603A1 (en) 2015-02-26
CA2921603C true CA2921603C (en) 2019-11-05

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CA2921603A Active CA2921603C (en) 2013-08-23 2014-08-22 Methods and compositions for cdna synthesis and single-cell transcriptome profiling using template switching reaction

Country Status (8)

Country Link
US (2) US10266894B2 (https=)
EP (1) EP3036336B1 (https=)
JP (2) JP6336080B2 (https=)
CN (2) CN105579587A (https=)
CA (1) CA2921603C (https=)
DK (1) DK3036336T3 (https=)
ES (1) ES2827307T3 (https=)
WO (1) WO2015027135A1 (https=)

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CN105579587A (zh) * 2013-08-23 2016-05-11 惠氏公司 用于使用模板转换反应进行cDNA合成和单细胞转录组概况分析的方法和组合物
CA2935122C (en) * 2013-12-30 2023-09-19 Atreca, Inc. Analysis of nucleic acids associated with single cells using nucleic acid barcodes
EP3350732B1 (en) 2015-09-15 2024-07-24 Takara Bio USA, Inc. Method for preparing a next generation sequencing (ngs) library from a ribonucleic acid (rna) sample and kit for practicing the same
SG11201803646YA (en) 2015-11-04 2018-05-30 Atreca Inc Combinatorial sets of nucleic acid barcodes for analysis of nucleic acids associated with single cells
WO2017214417A1 (en) 2016-06-10 2017-12-14 Takara Bio Usa, Inc. Methods and compositions employing blocked primers
CN106498040B (zh) * 2016-10-12 2018-10-23 浙江大学 一种分子标记微珠及基于该分子标记微珠的高通量单细胞测序方法
JP7050057B2 (ja) 2016-11-10 2022-04-07 タカラ バイオ ユーエスエー， インコーポレイテッド 増幅二本鎖デオキシリボ核酸の作製方法ならびに該方法で使用する組成物及びキット
KR102709829B1 (ko) 2016-11-11 2024-09-24 바이오 래드 래버러토리스 인코오포레이티드 핵산 샘플을 프로세싱하는 방법
CN106868005B (zh) * 2017-03-17 2020-07-21 中山大学附属肿瘤医院 一种用于高效快速扩增cDNA末端的锚定引物及扩增方法
US11946043B2 (en) 2017-09-11 2024-04-02 Ludwig Institute For Cancer Research Ltd Selective labeling of 5-methylcytosine in circulating cell-free DNA
CN108103055B (zh) * 2018-01-09 2021-05-28 序康医疗科技（苏州）有限公司 一种单细胞rna逆转录与文库构建的方法
US11814674B2 (en) 2018-02-02 2023-11-14 The United States Of America, As Represented By The Secretary Department Of Health And Human Services Random amplification methods for extremely low input nucleic acids
WO2020036926A1 (en) 2018-08-17 2020-02-20 Cellecta, Inc. Multiplex preparation of barcoded gene specific dna fragments
EP3902922A1 (en) 2018-12-28 2021-11-03 Biobloxx AB Method and kit for preparing complementary dna
WO2020227654A1 (en) * 2019-05-09 2020-11-12 Pacific Biosciences Of California, Inc. Compositions and methods for improved cdna synthesis
US20220356462A1 (en) 2019-07-11 2022-11-10 Tokyo University Of Science Foundation Method for amplifying nucleic acid using solid-phase carrier
US20230193254A1 (en) * 2020-05-20 2023-06-22 Chan Zuckerberg Biohub, Inc. Total rna profiling of biological samples and single cells
WO2023241721A1 (zh) * 2022-06-17 2023-12-21 复旦大学 基于拓扑捕获的rna样本处理系统
KR20250094720A (ko) 2023-03-09 2025-06-25 이뮤노제네텍스 가부시키가이샤 상보 dna쇄를 증폭하는 방법
CN116497105B (zh) * 2023-06-28 2023-09-29 浙江大学 基于末端转移酶的单细胞转录组测序试剂盒及测序方法
CN119776495A (zh) * 2024-12-31 2025-04-08 北京普译生物科技有限公司 一种cDNA建库中的模板转换方法

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US5962271A (en) 1996-01-03 1999-10-05 Cloutech Laboratories, Inc. Methods and compositions for generating full-length cDNA having arbitrary nucleotide sequence at the 3'-end
ATE314488T1 (de) 1999-03-18 2006-01-15 Exiqon As Einstufige probezubereitung und bestimmung von nukleinsäure in biologischen proben
DK3002337T3 (en) * 2009-03-30 2019-02-18 Illumina Inc ANALYSIS OF EXPRESSION OF GENES IN SINGLE CELLS
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Also Published As

Publication number Publication date
CN105579587A (zh) 2016-05-11
WO2015027135A1 (en) 2015-02-26
JP2018088924A (ja) 2018-06-14
EP3036336B1 (en) 2020-09-30
US20160258016A1 (en) 2016-09-08
EP3036336A4 (en) 2017-06-28
DK3036336T3 (da) 2020-11-02
US10266894B2 (en) 2019-04-23
CA2921603A1 (en) 2015-02-26
CN115558661A (zh) 2023-01-03
JP6336080B2 (ja) 2018-06-06
EP3036336A1 (en) 2016-06-29
ES2827307T3 (es) 2021-05-20
JP6603699B2 (ja) 2019-11-06
US20190264284A1 (en) 2019-08-29
JP2016527919A (ja) 2016-09-15

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