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WO2010039991A3 - Method of generating informative dna templates for high-throughput sequencing applications - Google Patents

Method of generating informative dna templates for high-throughput sequencing applications Download PDF

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Publication number
WO2010039991A3
WO2010039991A3 PCT/US2009/059274 US2009059274W WO2010039991A3 WO 2010039991 A3 WO2010039991 A3 WO 2010039991A3 US 2009059274 W US2009059274 W US 2009059274W WO 2010039991 A3 WO2010039991 A3 WO 2010039991A3
Authority
WO
WIPO (PCT)
Prior art keywords
dna templates
templates
throughput sequencing
dna
informative dna
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.)
Ceased
Application number
PCT/US2009/059274
Other languages
French (fr)
Other versions
WO2010039991A2 (en
Inventor
John Mullet
Daryl Morishige
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.)
Texas A&M University System
Texas A&M University
Original Assignee
Texas A&M University System
Texas A&M University
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 Texas A&M University System, Texas A&M University filed Critical Texas A&M University System
Publication of WO2010039991A2 publication Critical patent/WO2010039991A2/en
Publication of WO2010039991A3 publication Critical patent/WO2010039991A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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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
    • C12Q1/6811—Selection methods for production or design of target specific oligonucleotides or binding molecules

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  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Immunology (AREA)
  • Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Methods and compositions are disclosed for generating informative DNA templates for sequencing. The methods generally include fragmenting an individual's genomic DNA to generate templates with predetermined range of sequence lengths, ligating adapters; selecting informative DNA templates, which contain a polymorphism; and recovering enriched informative DNA templates. The DNA templates may then be sequenced using a high throughput sequencing process, and the resulting sequences compared to a reference set of sequences obtained from the genomes of other individuals, to identify DNA polymorphisms and to generate genotypes.
PCT/US2009/059274 2008-10-02 2009-10-01 Method of generating informative dna templates for high-throughput sequencing applications Ceased WO2010039991A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US10211808P 2008-10-02 2008-10-02
US61/102,118 2008-10-02

Publications (2)

Publication Number Publication Date
WO2010039991A2 WO2010039991A2 (en) 2010-04-08
WO2010039991A3 true WO2010039991A3 (en) 2011-03-03

Family

ID=42074216

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2009/059274 Ceased WO2010039991A2 (en) 2008-10-02 2009-10-01 Method of generating informative dna templates for high-throughput sequencing applications

Country Status (1)

Country Link
WO (1) WO2010039991A2 (en)

Families Citing this family (17)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102373288B (en) * 2011-11-30 2013-12-11 盛司潼 Method and kit for sequencing target areas
SG10201504490QA (en) 2012-01-26 2015-07-30 Nugen Technologies Inc Compositions And Methods For Targeted Nucleic Acid Sequence Enrichment And High Efficiency Library Generation
US9957549B2 (en) 2012-06-18 2018-05-01 Nugen Technologies, Inc. Compositions and methods for negative selection of non-desired nucleic acid sequences
US20150011396A1 (en) 2012-07-09 2015-01-08 Benjamin G. Schroeder Methods for creating directional bisulfite-converted nucleic acid libraries for next generation sequencing
EP2971130A4 (en) 2013-03-15 2016-10-05 Nugen Technologies Inc Sequential sequencing
CN104232626A (en) * 2013-06-13 2014-12-24 深圳华大基因科技有限公司 Barcode object in reduced-representation genome sequencing library and design method thereof
CN104232627B (en) * 2013-06-13 2017-05-10 深圳华大基因科技有限公司 2b-RAD pooling technology
CN105849264B (en) 2013-11-13 2019-09-27 纽亘技术公司 Compositions and methods for identifying repetitive sequencing reads
US9745614B2 (en) 2014-02-28 2017-08-29 Nugen Technologies, Inc. Reduced representation bisulfite sequencing with diversity adaptors
US10102337B2 (en) 2014-08-06 2018-10-16 Nugen Technologies, Inc. Digital measurements from targeted sequencing
CN105483267B (en) * 2016-01-15 2018-12-04 古博 Plasma DNA bimolecular label, label and method of detection blood plasma cfDNA and application thereof
JP7056012B2 (en) * 2017-05-19 2022-04-19 トヨタ自動車株式会社 Random primer set and method for preparing a DNA library using it
US11099202B2 (en) 2017-10-20 2021-08-24 Tecan Genomics, Inc. Reagent delivery system
JP7047373B2 (en) 2017-12-25 2022-04-05 トヨタ自動車株式会社 Next-generation sequencer primer and its manufacturing method, DNA library using next-generation sequencer primer, its manufacturing method, and genomic DNA analysis method using the DNA library.
US12059674B2 (en) 2020-02-03 2024-08-13 Tecan Genomics, Inc. Reagent storage system
CN111635958B (en) * 2020-07-22 2022-05-24 中国农业科学院作物科学研究所 Molecular marker linked with rice cold-resistant gene qSF12 and application thereof
CN112458199B (en) * 2020-12-24 2021-11-16 华智生物技术有限公司 SNP molecular marker of rice salt-tolerant gene SKC1 and application thereof

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000078945A1 (en) * 1999-06-23 2000-12-28 Stratagene Methods of enriching for and identifying polymorphisms
US20040132056A1 (en) * 2001-07-20 2004-07-08 Affymetrix, Inc. Method of target enrichment and amplification
WO2007106509A2 (en) * 2006-03-14 2007-09-20 Genizon Biosciences, Inc. Methods and means for nucleic acid sequencing
WO2008015975A1 (en) * 2006-07-31 2008-02-07 Kinki University Method for amplification of dna fragment

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000078945A1 (en) * 1999-06-23 2000-12-28 Stratagene Methods of enriching for and identifying polymorphisms
US20040132056A1 (en) * 2001-07-20 2004-07-08 Affymetrix, Inc. Method of target enrichment and amplification
WO2007106509A2 (en) * 2006-03-14 2007-09-20 Genizon Biosciences, Inc. Methods and means for nucleic acid sequencing
WO2008015975A1 (en) * 2006-07-31 2008-02-07 Kinki University Method for amplification of dna fragment

Also Published As

Publication number Publication date
WO2010039991A2 (en) 2010-04-08

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