AU2021311713A1 - Methods for nomination of nuclease on-/off-target editing locations, designated "CTL-seq" (CRISPR tag linear-seq) - Google Patents

Methods for nomination of nuclease on-/off-target editing locations, designated "CTL-seq" (CRISPR tag linear-seq) Download PDF

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Publication number
AU2021311713A1
AU2021311713A1 AU2021311713A AU2021311713A AU2021311713A1 AU 2021311713 A1 AU2021311713 A1 AU 2021311713A1 AU 2021311713 A AU2021311713 A AU 2021311713A AU 2021311713 A AU2021311713 A AU 2021311713A AU 2021311713 A1 AU2021311713 A1 AU 2021311713A1
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Australia
Prior art keywords
sequences
tag
primers
sequence
seq
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Pending
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AU2021311713A
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Inventor
Ellen BLACK
Keith GUNDERSON
Kyle KINNEY
Matthew Mcneill
Garrett Rettig
Chris SAILOR
Yongming Sun
Rolf TURK
Yu Wang
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Integrated DNA Technologies Inc
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Integrated DNA Technologies Inc
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Publication of AU2021311713A1 publication Critical patent/AU2021311713A1/en
Pending legal-status Critical Current

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    • 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
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/111—General methods applicable to biologically active non-coding nucleic 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
    • 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
    • C12Q1/6811—Selection methods for production or design of target specific oligonucleotides or binding molecules
    • 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
    • C12N9/00—Enzymes; Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating or purifying enzymes
    • C12N9/14—Hydrolases (3)
    • C12N9/16—Hydrolases (3) acting on ester bonds (3.1)
    • C12N9/22—Ribonucleases [RNase]; Deoxyribonucleases [DNase]
    • 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
    • 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
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/10—Type of nucleic acid
    • C12N2310/20—Type of nucleic acid involving clustered regularly interspaced short palindromic repeats [CRISPR]

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  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Molecular Biology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Biomedical Technology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Plant Pathology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Medicinal Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Enzymes And Modification Thereof (AREA)
AU2021311713A 2020-07-23 2021-07-22 Methods for nomination of nuclease on-/off-target editing locations, designated "CTL-seq" (CRISPR tag linear-seq) Pending AU2021311713A1 (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US202063055460P 2020-07-23 2020-07-23
US63/055,460 2020-07-23
PCT/US2021/042733 WO2022020567A2 (en) 2020-07-23 2021-07-22 Methods for nomination of nuclease on-/off-target editing locations, designated "ctl-seq" (crispr tag linear-seq)

Publications (1)

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AU2021311713A1 true AU2021311713A1 (en) 2023-03-09

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Family Applications (1)

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AU2021311713A Pending AU2021311713A1 (en) 2020-07-23 2021-07-22 Methods for nomination of nuclease on-/off-target editing locations, designated "CTL-seq" (CRISPR tag linear-seq)

Country Status (8)

Country Link
US (2) US20220025365A1 (https=)
EP (1) EP4185708A2 (https=)
JP (2) JP2023535407A (https=)
KR (1) KR20230040370A (https=)
CN (1) CN116194593A (https=)
AU (1) AU2021311713A1 (https=)
CA (1) CA3185571A1 (https=)
WO (1) WO2022020567A2 (https=)

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
GB202013141D0 (en) 2020-08-21 2020-10-07 Univ College Cardiff Consultants Ltd A screening method for the detection of DNA damage
WO2025151661A1 (en) * 2024-01-10 2025-07-17 Sequre Dx, Inc. Methods for single-ended oligonucleotide enrichment and sequencing
WO2026039499A1 (en) 2024-08-14 2026-02-19 Integrated Dna Technologies, Inc. Adaptered-tag blocking oligonucleotides

Family Cites Families (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9809904B2 (en) * 2011-04-21 2017-11-07 University Of Washington Through Its Center For Commercialization Methods for retrieval of sequence-verified DNA constructs
CN111254500B (zh) * 2012-12-10 2024-01-23 分析生物科学有限公司 靶向基因组分析的方法
CA2906365A1 (en) * 2013-03-15 2014-09-18 Integrated Dna Technologies, Inc. Rnase h-based assays utilizing modified rna monomers
CN106604994B (zh) * 2014-06-23 2021-12-14 通用医疗公司 通过测序评估的DSBs的全基因组无偏鉴定(GUIDE-Seq)
WO2016030899A1 (en) * 2014-08-28 2016-03-03 Yeda Research And Development Co. Ltd. Methods of treating amyotrophic lateral scleroses
EP3221813A4 (en) * 2014-11-20 2018-04-18 Children's Medical Center Corporation Methods relating to the detection of recurrent and non-specific double strand breaks in the genome
IL269431B2 (en) * 2017-03-23 2025-05-01 Univ Washington Methods for targeted nucleic acid sequence enrichment with applications to error corrected nucleic acid sequencing
CN111868260B (zh) * 2017-08-07 2025-02-21 约翰斯霍普金斯大学 用于评估和治疗癌症的方法和材料
WO2019110067A1 (en) * 2017-12-07 2019-06-13 Aarhus Universitet Hybrid nanoparticle

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Publication number Publication date
WO2022020567A3 (en) 2022-03-10
JP2026048971A (ja) 2026-03-17
JP2023535407A (ja) 2023-08-17
CA3185571A1 (en) 2022-01-27
CN116194593A (zh) 2023-05-30
US20220025365A1 (en) 2022-01-27
KR20230040370A (ko) 2023-03-22
EP4185708A2 (en) 2023-05-31
US20250257352A1 (en) 2025-08-14
WO2022020567A2 (en) 2022-01-27

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