JP7420388B2 - 遺伝毒性を検出し、評価するための方法および試薬 - Google Patents

遺伝毒性を検出し、評価するための方法および試薬 Download PDF

Info

Publication number
JP7420388B2
JP7420388B2 JP2020564824A JP2020564824A JP7420388B2 JP 7420388 B2 JP7420388 B2 JP 7420388B2 JP 2020564824 A JP2020564824 A JP 2020564824A JP 2020564824 A JP2020564824 A JP 2020564824A JP 7420388 B2 JP7420388 B2 JP 7420388B2
Authority
JP
Japan
Prior art keywords
double
genotoxic
stranded
nucleic acid
sequence
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.)
Active
Application number
JP2020564824A
Other languages
English (en)
Japanese (ja)
Other versions
JP2021513364A (ja
JP2021513364A5 (https=
Inventor
ソーク，ジェシー・ジェイ
バレンタイン，チャールズ・クリントン・ザ・サード
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.)
Twinstrand Biosciences Inc
Original Assignee
Twinstrand Biosciences 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 Twinstrand Biosciences Inc filed Critical Twinstrand Biosciences Inc
Publication of JP2021513364A publication Critical patent/JP2021513364A/ja
Publication of JP2021513364A5 publication Critical patent/JP2021513364A5/ja
Priority to JP2023222575A priority Critical patent/JP2024038208A/ja
Application granted granted Critical
Publication of JP7420388B2 publication Critical patent/JP7420388B2/ja
Active legal-status Critical Current
Anticipated expiration legal-status Critical

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
    • 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
    • C12Q1/6858—Allele-specific amplification
    • 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
    • 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
    • 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
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/50—Mutagenesis
    • 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
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/191—Modifications characterised by incorporating an adaptor
    • 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
    • C12Q2600/142—Toxicological screening, e.g. expression profiles which identify toxicity

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Immunology (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • General Engineering & Computer Science (AREA)
  • Pathology (AREA)
  • Medical Informatics (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Oncology (AREA)
  • Hospice & Palliative Care (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Pharmaceuticals Containing Other Organic And Inorganic Compounds (AREA)
  • Enzymes And Modification Thereof (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
JP2020564824A 2018-02-13 2019-02-13 遺伝毒性を検出し、評価するための方法および試薬 Active JP7420388B2 (ja)

Priority Applications (1)

Application Number Priority Date Filing Date Title
JP2023222575A JP2024038208A (ja) 2018-02-13 2023-12-28 遺伝毒性を検出し、評価するための方法および試薬

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201862630228P 2018-02-13 2018-02-13
US62/630,228 2018-02-13
US201862737097P 2018-09-26 2018-09-26
US62/737,097 2018-09-26
PCT/US2019/017908 WO2019160998A1 (en) 2018-02-13 2019-02-13 Methods and reagents for detecting and assessing genotoxicity

Related Child Applications (1)

Application Number Title Priority Date Filing Date
JP2023222575A Division JP2024038208A (ja) 2018-02-13 2023-12-28 遺伝毒性を検出し、評価するための方法および試薬

Publications (3)

Publication Number Publication Date
JP2021513364A JP2021513364A (ja) 2021-05-27
JP2021513364A5 JP2021513364A5 (https=) 2022-02-21
JP7420388B2 true JP7420388B2 (ja) 2024-01-23

Family

ID=67619087

Family Applications (2)

Application Number Title Priority Date Filing Date
JP2020564824A Active JP7420388B2 (ja) 2018-02-13 2019-02-13 遺伝毒性を検出し、評価するための方法および試薬
JP2023222575A Pending JP2024038208A (ja) 2018-02-13 2023-12-28 遺伝毒性を検出し、評価するための方法および試薬

Family Applications After (1)

Application Number Title Priority Date Filing Date
JP2023222575A Pending JP2024038208A (ja) 2018-02-13 2023-12-28 遺伝毒性を検出し、評価するための方法および試薬

Country Status (13)

Country Link
US (1) US20210355532A1 (https=)
EP (1) EP3752639A4 (https=)
JP (2) JP7420388B2 (https=)
KR (1) KR20200123159A (https=)
CN (1) CN111836905A (https=)
AU (2) AU2019221549C1 (https=)
BR (1) BR112020016516A2 (https=)
CA (1) CA3091022A1 (https=)
IL (1) IL276637A (https=)
MX (1) MX2020008472A (https=)
RU (1) RU2020130024A (https=)
SG (1) SG11202007648WA (https=)
WO (1) WO2019160998A1 (https=)

Families Citing this family (18)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10844428B2 (en) 2015-04-28 2020-11-24 Illumina, Inc. Error suppression in sequenced DNA fragments using redundant reads with unique molecular indices (UMIS)
CA3006792A1 (en) 2015-12-08 2017-06-15 Twinstrand Biosciences, Inc. Improved adapters, methods, and compositions for duplex sequencing
SG11201906428SA (en) 2017-01-18 2019-08-27 Illumina Inc Methods and systems for generation and error-correction of unique molecular index sets with heterogeneous molecular lengths
AU2018261332B2 (en) 2017-05-01 2024-12-05 Illumina, Inc. Optimal index sequences for multiplex massively parallel sequencing
EP3622089B1 (en) 2017-05-08 2024-07-17 Illumina, Inc. Method for sequencing using universal short adapters for indexing of polynucleotide samples
US11447818B2 (en) 2017-09-15 2022-09-20 Illumina, Inc. Universal short adapters with variable length non-random unique molecular identifiers
AU2018366213B2 (en) 2017-11-08 2025-05-15 Twinstrand Biosciences, Inc. Reagents and adapters for nucleic acid sequencing and methods for making such reagents and adapters
BR112021000409A2 (pt) * 2018-07-12 2021-04-06 Twinstrand Biosciences, Inc. Métodos e reagentes para caracterizar edição genômica, expansão clonal e aplicações associadas
GB201911095D0 (en) * 2019-08-02 2019-09-18 Randox Laboratories Ltd Biological status classification
IL303423A (en) * 2020-12-07 2023-08-01 Hoffmann La Roche Techniques for generating predictive results related to oncology treatment lines using artificial intelligence
CN112614544B (zh) * 2020-12-28 2024-05-17 杭州瑞普基因科技有限公司 Kraken2软件输出结果的优化方法及鉴定样本中物种类型的方法
CN112553356A (zh) * 2020-12-31 2021-03-26 江苏意诺飞生物科技有限公司 一种高通量检测和判定幽门螺旋杆菌耐药性的方法
CN113554285B (zh) * 2021-07-05 2024-04-26 中国水产科学研究院黄海水产研究所 暴发水母种群波动对渔业资源风险影响的量化评估方法
NL2029132B1 (en) * 2021-09-06 2023-03-21 Prinses Maxima Centrum Voor Kinderoncologie B V Means and methods for assessing genotoxicity
CN115713968A (zh) * 2022-11-21 2023-02-24 苏州新格元生物科技有限公司 一种评估基因毒性的方法、装置、存储介质和设备
US12514461B2 (en) * 2023-08-23 2026-01-06 Wisconsin Alumni Research Foundation System and method for analyzing gene expression using diffusion weighted magnetic resonance imaging (MRI)
KR102698843B1 (ko) * 2024-01-23 2024-08-26 주식회사 이콜트리 유전독성 시험 자동화 시스템 및 방법
WO2025216210A1 (ja) * 2024-04-08 2025-10-16 株式会社ペルセウスプロテオミクス 識別用分子を用いた核酸分子の特定

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2013142389A1 (en) 2012-03-20 2013-09-26 University Of Washington Through Its Center For Commercialization Methods of lowering the error rate of massively parallel dna sequencing using duplex consensus sequencing
US20150275289A1 (en) 2012-05-31 2015-10-01 Board Of Regents, The University Of Texas System Method for Accurate Sequencing of DNA

Family Cites Families (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5510099A (en) * 1987-05-01 1996-04-23 Stratagene Mutagenesis testing using transgenic non-human animals carrying test DNA sequences
KR100300932B1 (ko) * 1992-07-06 2001-10-22 조이스 브린톤 리포터유전자에융합된세균의스트레스프로모터를이용하여독성을측정하는방법및진단키트
GB0905410D0 (en) * 2009-03-28 2009-05-13 Gentronix Ltd Genotoxicity testing
EP2706123A1 (en) * 2012-09-05 2014-03-12 Rijksinstituut Voor Volksgezondheid En Milieu In vitro method for determining genotoxic and non-genotoxic carcinogenicity of a compound.
ES2674928T3 (es) * 2012-11-05 2018-07-05 Gmdx Co Pty Ltd Métodos para determinar la causa de la mutagénesis somática
JP6262922B1 (ja) * 2017-02-16 2018-01-17 花王株式会社 物質の遺伝毒性の評価方法
BR112021000409A2 (pt) * 2018-07-12 2021-04-06 Twinstrand Biosciences, Inc. Métodos e reagentes para caracterizar edição genômica, expansão clonal e aplicações associadas

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2013142389A1 (en) 2012-03-20 2013-09-26 University Of Washington Through Its Center For Commercialization Methods of lowering the error rate of massively parallel dna sequencing using duplex consensus sequencing
US20150275289A1 (en) 2012-05-31 2015-10-01 Board Of Regents, The University Of Texas System Method for Accurate Sequencing of DNA

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
Nat. Protocol.，2014年，vol.9，p.2586-2606
Proc. Natl. Acad. Sci.，2017年03月28日，vol.114，E3101-E3109

Also Published As

Publication number Publication date
EP3752639A4 (en) 2021-12-01
JP2024038208A (ja) 2024-03-19
JP2021513364A (ja) 2021-05-27
KR20200123159A (ko) 2020-10-28
WO2019160998A1 (en) 2019-08-22
SG11202007648WA (en) 2020-09-29
IL276637A (en) 2020-09-30
BR112020016516A2 (pt) 2020-12-15
US20210355532A1 (en) 2021-11-18
AU2019221549A1 (en) 2020-09-24
AU2025263841A1 (en) 2025-11-27
CA3091022A1 (en) 2019-08-22
AU2019221549C1 (en) 2025-11-27
AU2019221549B2 (en) 2025-08-07
CN111836905A (zh) 2020-10-27
MX2020008472A (es) 2020-11-11
EP3752639A1 (en) 2020-12-23
RU2020130024A (ru) 2022-03-14

Similar Documents

Publication Publication Date Title
JP7420388B2 (ja) 遺伝毒性を検出し、評価するための方法および試薬
US12529101B2 (en) Methods and reagents for characterizing genomic editing, clonal expansion, and associated applications
Newman et al. Integrated digital error suppression for improved detection of circulating tumor DNA
JP7541363B2 (ja) プーリングを介した多数の試料の効率的な遺伝子型決定のための方法および試薬
CN114026646A (zh) 用于评估肿瘤分数的系统和方法
KR102873073B1 (ko) 핵산 혼합물 및 혼합된 세포 집단을 해상하기 위한 방법 및 시약 및 관련 응용
JP2022532403A (ja) 残存疾患を検出するための方法およびシステム
JP2017522866A (ja) 核酸配列の分析
JPWO2019004080A1 (ja) 融合遺伝子及び／又はエクソンスキッピングにより生ずる転写産物を検出するためのプローブ及び方法
Mossanen et al. Genomic features of muscle-invasive bladder cancer arising after prostate radiotherapy
US20150071946A1 (en) Tumor-specific retrotransposon insertions
CN112359116A (zh) 一种检测dna跨损伤合成修复通路关键突变基因的试剂盒
US20250191681A1 (en) Methods of characterising a dna sample
KR102957023B1 (ko) 게놈 편집, 클론 팽창 및 연관된 분야를 규명하기 위한 방법 및 시약
HK40036114A (en) Methods and reagents for detecting and assessing genotoxicity
CA3105659C (en) Methods and reagents for characterizing genomic editing, clonal expansion, and associated applications
HK40050975A (en) Methods and reagents for characterizing genomic editing, clonal expansion, and associated applications
HK40059649A (en) Methods and reagents for efficient genotyping of large numbers of samples via pooling

Legal Events

Date Code Title Description
A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20220210

A621 Written request for application examination

Free format text: JAPANESE INTERMEDIATE CODE: A621

Effective date: 20220210

A977 Report on retrieval

Free format text: JAPANESE INTERMEDIATE CODE: A971007

Effective date: 20221228

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20230110

A601 Written request for extension of time

Free format text: JAPANESE INTERMEDIATE CODE: A601

Effective date: 20230403

A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20230607

A131 Notification of reasons for refusal

Free format text: JAPANESE INTERMEDIATE CODE: A131

Effective date: 20230822

A521 Request for written amendment filed

Free format text: JAPANESE INTERMEDIATE CODE: A523

Effective date: 20231122

TRDD Decision of grant or rejection written
A01 Written decision to grant a patent or to grant a registration (utility model)

Free format text: JAPANESE INTERMEDIATE CODE: A01

Effective date: 20231205

A61 First payment of annual fees (during grant procedure)

Free format text: JAPANESE INTERMEDIATE CODE: A61

Effective date: 20231228

R150 Certificate of patent or registration of utility model

Ref document number: 7420388

Country of ref document: JP

Free format text: JAPANESE INTERMEDIATE CODE: R150