KR20220039653A - 표적 게놈 영역의 포집 및 분석 - Google Patents

표적 게놈 영역의 포집 및 분석 Download PDF

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Publication number
KR20220039653A
KR20220039653A KR1020217040709A KR20217040709A KR20220039653A KR 20220039653 A KR20220039653 A KR 20220039653A KR 1020217040709 A KR1020217040709 A KR 1020217040709A KR 20217040709 A KR20217040709 A KR 20217040709A KR 20220039653 A KR20220039653 A KR 20220039653A
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South Korea
Prior art keywords
target genomic
genomic region
target
stranded
recognition site
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KR1020217040709A
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English (en)
Korean (ko)
Inventor
레안드로 고미데 네베스
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래피드 제노믹스 엘엘씨
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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
    • C12Q1/6813—Hybridisation assays
    • 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
    • C12Q1/6806—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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • 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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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Health & Medical Sciences (AREA)
  • Zoology (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Immunology (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Medicinal Chemistry (AREA)
  • Biomedical Technology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
KR1020217040709A 2019-05-13 2020-05-13 표적 게놈 영역의 포집 및 분석 Pending KR20220039653A (ko)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201962846988P 2019-05-13 2019-05-13
US62/846,988 2019-05-13
PCT/US2020/032615 WO2020232081A2 (en) 2019-05-13 2020-05-13 Capture and analysis of target genomic regions

Publications (1)

Publication Number Publication Date
KR20220039653A true KR20220039653A (ko) 2022-03-29

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KR1020217040709A Pending KR20220039653A (ko) 2019-05-13 2020-05-13 표적 게놈 영역의 포집 및 분석

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Country Link
US (1) US20220220542A1 (enExample)
EP (1) EP3969581B1 (enExample)
JP (1) JP7854386B2 (enExample)
KR (1) KR20220039653A (enExample)
CN (1) CN114286861B (enExample)
AU (1) AU2020275301A1 (enExample)
BR (1) BR112022001539A2 (enExample)
CA (1) CA3145806A1 (enExample)
ES (1) ES3051342T3 (enExample)
WO (1) WO2020232081A2 (enExample)

Families Citing this family (2)

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Publication number Priority date Publication date Assignee Title
EP4034675A4 (en) * 2019-09-26 2023-10-04 Jumpcode Genomics, Inc. Method and system for targeted nucleic acid sequencing
WO2022232425A2 (en) * 2021-04-29 2022-11-03 Illumina, Inc. Amplification techniques for nucleic acid characterization

Family Cites Families (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
FR2876249A1 (fr) 2004-10-11 2006-04-14 Barry Callebaut Ag Utilisation du beurre de cacao dans des preparations culinaires
US20090233291A1 (en) * 2005-06-06 2009-09-17 454 Life Sciences Corporation Paired end sequencing
CA2615323A1 (en) * 2005-06-06 2007-12-21 454 Life Sciences Corporation Paired end sequencing
EP3257949A1 (en) 2005-06-15 2017-12-20 Complete Genomics Inc. Nucleic acid analysis by random mixtures of non-overlapping fragments
CN101432439B (zh) * 2006-02-24 2013-07-24 考利达基因组股份有限公司 Dna阵列上的高通量基因组测序
US20090156412A1 (en) 2007-12-17 2009-06-18 Helicos Biosciences Corporation Surface-capture of target nucleic acids
US9080211B2 (en) * 2008-10-24 2015-07-14 Epicentre Technologies Corporation Transposon end compositions and methods for modifying nucleic acids
US9365897B2 (en) * 2011-02-08 2016-06-14 Illumina, Inc. Selective enrichment of nucleic acids
US9873907B2 (en) * 2013-05-29 2018-01-23 Agilent Technologies, Inc. Method for fragmenting genomic DNA using CAS9
EP4170044B1 (en) * 2014-06-06 2026-03-11 Cornell University Method for identification and enumeration of nucleic acid sequence, expression, copy, or dna methylation changes, using combined nuclease, ligase, polymerase, and sequencing reactions
HRP20200529T1 (hr) * 2014-06-06 2020-09-04 Regeneron Pharmaceuticals, Inc. Postupci i pripravci za modificiranje ciljnog lokusa
WO2016109255A1 (en) * 2014-12-30 2016-07-07 University Of South Florida Methods and compositions for cloning into large vectors
GB2565461B (en) * 2016-03-31 2022-04-13 Harvard College Methods and compositions for the single tube preparation of sequencing libraries using Cas9
GB201616590D0 (en) * 2016-09-29 2016-11-16 Oxford Nanopore Technologies Limited Method
KR20220038604A (ko) * 2019-05-30 2022-03-29 래피드 제노믹스 엘엘씨 표적 게놈 영역의 유연한 및 고처리량 시퀀싱

Non-Patent Citations (9)

* Cited by examiner, † Cited by third party
Title
Dahl, F., Stenberg, J., Fredriksson, S., Welch, K., Zhang, M., Nilsson, M., et al. (2007). Multigene amplification and massively parallel sequencing for cancer mutation discovery. Proc. Natl. Acad. Sci. U. S. A. 104, 9387-92. doi:10.1073/pnas.0702165104.
Fredriksson, S., Baner, J., Dahl, F., Chu, A., Ji, H., Welch, K., et al. (2007). Multiplex amplification of all coding sequences within 10 cancer genes by Gene-Collector. Nucleic Acids Res. 35, e47. doi:10.1093/nar/gkm078.
Hegge, J. W., Swarts, D. C., and van der Oost, J. (2017). Prokaryotic Argonaute proteins: novel genome-editing tools? Nat. Rev. Microbiol. 16, 5-11. doi:10.1038/nrmicro.2017.73.
Hu, J. H., Miller, S. M., Geurts, M. H., Tang, W., Chen, L., Sun, N., et al. (2018). Evolved Cas9 variants with broad PAM compatibility and high DNA specificity. Nature 556, 57-63. doi:10.1038/nature26155.
Jinek, M., Chylinski, K., Fonfara, I., Hauer, M., Doudna, J. A., and Charpentier, E. (2012). A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337, 816-21. doi:10.1126/science.1225829.
Nilsson, M., Malmgren, H., Samiotaki, M., Kwiatkowski, M., Chowdhary, B. P., and Landegren, U. (1994). Padlock probes: circularizing oligonucleotides for localized DNA detection. Science 265, 2085-8. Available at: http://www.ncbi.nlm.nih.gov/pubmed/7522346 [Accessed May 1, 2018].
Swarts, D. C., Hegge, J. W., Hinojo, I., Shiimori, M., Ellis, M. A., Dumrongkulraksa, J., et al. (2015). Argonaute of the archaeon Pyrococcus furiosus is a DNA-guided nuclease that targets cognate DNA. Nucleic Acids Res. 43, 5120-5129. doi:10.1093/nar/gkv415.
Varshney, G. K., and Burgess, S. M. (2016). DNA-guided genome editing using structure-guided endonucleases. Genome Biol. 17, 187. doi:10.1186/s13059-016-1055-4.
Xu, S., Cao, S., Zou, B., Yue, Y., Gu, C., Chen, X., et al. (2016). An alternative novel tool for DNA editing without target sequence limitation: the structure-guided nuclease. Genome Biol. 17, 186. doi:10.1186/s13059-016-1038-5.

Also Published As

Publication number Publication date
BR112022001539A2 (pt) 2022-03-22
ES3051342T3 (en) 2025-12-26
CN114286861B (zh) 2024-12-06
EP3969581B1 (en) 2025-10-08
JP2022534625A (ja) 2022-08-02
WO2020232081A3 (en) 2020-12-24
AU2020275301A1 (en) 2022-01-20
EP3969581A2 (en) 2022-03-23
EP3969581A4 (en) 2023-06-14
WO2020232081A2 (en) 2020-11-19
US20220220542A1 (en) 2022-07-14
CN114286861A (zh) 2022-04-05
CA3145806A1 (en) 2020-11-19
JP7854386B2 (ja) 2026-05-01

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