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WO2013010062A3 - Nucleic acid complexity reduction - Google Patents

Nucleic acid complexity reduction Download PDF

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Publication number
WO2013010062A3
WO2013010062A3 PCT/US2012/046624 US2012046624W WO2013010062A3 WO 2013010062 A3 WO2013010062 A3 WO 2013010062A3 US 2012046624 W US2012046624 W US 2012046624W WO 2013010062 A3 WO2013010062 A3 WO 2013010062A3
Authority
WO
WIPO (PCT)
Prior art keywords
nucleic acid
polynucleotides
oligonucleotide
complexity reduction
capture
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/US2012/046624
Other languages
French (fr)
Other versions
WO2013010062A2 (en
Inventor
Meredith GAVIN
Christopher CLOUSER
Tanya Sokolsky
Kimberly MATHER
Kevin Mckernan
Marie Callahan
Gary Bee
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.)
Life Technologies Corp
Original Assignee
Life Technologies Corp
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 Life Technologies Corp filed Critical Life Technologies Corp
Priority to US14/232,572 priority Critical patent/US20140243232A1/en
Publication of WO2013010062A2 publication Critical patent/WO2013010062A2/en
Publication of WO2013010062A3 publication Critical patent/WO2013010062A3/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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6832—Enhancement of hybridisation reaction

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (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

In some embodiments, the present teachings provide compositions, systems, methods and kits for reducing the complexity of nucleotide sequences in a nucleic acid sample comprising the steps: hybridizing a plurality of polynucleotide constructs to at least one blocker oligonucleotide and to at least one capture oligonucleotide, wherein the plurality of polynucleotide constructs include a plurality of polynucleotides each joined to at least one nucleic acid adaptor, wherein the at least one nucleic acid adaptor can hybridize to the at least one blocker oligonucleotide, and wherein the at least one capture oligonucleotide can hybridize to at least a portion of target polynucleotides that are a sub-population of the plurality of polynucleotides, so as to produce a capture duplex.
PCT/US2012/046624 2011-07-14 2012-07-13 Nucleic acid complexity reduction Ceased WO2013010062A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
US14/232,572 US20140243232A1 (en) 2011-07-14 2012-07-13 Nucleic acid complexity reduction

Applications Claiming Priority (8)

Application Number Priority Date Filing Date Title
US201161507961P 2011-07-14 2011-07-14
US61/507,961 2011-07-14
US201161524031P 2011-08-16 2011-08-16
US61/524,031 2011-08-16
US201161529687P 2011-08-31 2011-08-31
US61/529,687 2011-08-31
US201161545290P 2011-10-10 2011-10-10
US61/545,290 2011-10-10

Publications (2)

Publication Number Publication Date
WO2013010062A2 WO2013010062A2 (en) 2013-01-17
WO2013010062A3 true WO2013010062A3 (en) 2013-03-07

Family

ID=46614609

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2012/046624 Ceased WO2013010062A2 (en) 2011-07-14 2012-07-13 Nucleic acid complexity reduction

Country Status (1)

Country Link
WO (1) WO2013010062A2 (en)

Families Citing this family (27)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US10704164B2 (en) 2011-08-31 2020-07-07 Life Technologies Corporation Methods, systems, computer readable media, and kits for sample identification
US20150087537A1 (en) 2011-08-31 2015-03-26 Life Technologies Corporation Methods, Systems, Computer Readable Media, and Kits for Sample Identification
CN104736722B (en) 2012-05-21 2018-08-07 斯克利普斯研究所 Sample preparation method
TWI805996B (en) 2013-08-05 2023-06-21 美商扭轉生物科技有限公司 De novo synthesized gene libraries
US9533240B2 (en) 2013-11-12 2017-01-03 Life Technologies Corporation System and method for emulsion breaking
US9534215B2 (en) 2014-06-11 2017-01-03 Life Technologies Corporation Systems and methods for substrate enrichment
US10450562B2 (en) 2014-09-09 2019-10-22 Igenomx International Genomics Corporation Methods and compositions for rapid nucleic acid library preparation
US10669304B2 (en) 2015-02-04 2020-06-02 Twist Bioscience Corporation Methods and devices for de novo oligonucleic acid assembly
US9981239B2 (en) 2015-04-21 2018-05-29 Twist Bioscience Corporation Devices and methods for oligonucleic acid library synthesis
CN107969138B (en) 2015-05-14 2022-04-12 生命科技公司 Barcode sequences and related systems and methods
KR20180050411A (en) 2015-09-18 2018-05-14 트위스트 바이오사이언스 코포레이션 Oligonucleotide mutant library and its synthesis
CN113604546A (en) 2015-09-22 2021-11-05 特韦斯特生物科学公司 Flexible substrates for nucleic acid synthesis
US10619205B2 (en) 2016-05-06 2020-04-14 Life Technologies Corporation Combinatorial barcode sequences, and related systems and methods
EP3516528B1 (en) 2016-09-21 2025-10-15 Atlas Data Storage, Inc. Nucleic acid based data storage
SG11201907713WA (en) 2017-02-22 2019-09-27 Twist Bioscience Corp Nucleic acid based data storage
EP3585906A4 (en) * 2017-02-27 2020-12-09 Bioo Scientific Corporation Methods and kits for depleting undesired nucleic acids
KR102628876B1 (en) 2017-06-12 2024-01-23 트위스트 바이오사이언스 코포레이션 Methods for seamless nucleic acid assembly
WO2018231864A1 (en) 2017-06-12 2018-12-20 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
JP2020536504A (en) 2017-09-11 2020-12-17 ツイスト バイオサイエンス コーポレーション GPCR-coupled protein and its synthesis
JP7066840B2 (en) 2017-10-20 2022-05-13 ツイスト バイオサイエンス コーポレーション Heated nanowells for polynucleotide synthesis
CN112639130B (en) 2018-05-18 2024-08-09 特韦斯特生物科学公司 Polynucleotides, reagents and methods for nucleic acid hybridization
CN113692409B (en) 2018-12-26 2025-01-10 特韦斯特生物科学公司 Highly accurate de novo polynucleotide synthesis
WO2020176678A1 (en) 2019-02-26 2020-09-03 Twist Bioscience Corporation Variant nucleic acid libraries for glp1 receptor
CN113785057A (en) 2019-02-26 2021-12-10 特韦斯特生物科学公司 Variant nucleic acid libraries for antibody optimization
US11332738B2 (en) 2019-06-21 2022-05-17 Twist Bioscience Corporation Barcode-based nucleic acid sequence assembly
JP2022548309A (en) 2019-09-23 2022-11-17 ツイスト バイオサイエンス コーポレーション CRTH2 variant nucleic acid library
AU2020355027A1 (en) 2019-09-23 2022-04-21 Twist Bioscience Corporation Antibodies that bind CD3 Epsilon

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030232348A1 (en) * 2002-06-17 2003-12-18 Affymetrix, Inc. Complexity management of genomic DNA by locus specific amplification
WO2010003153A2 (en) * 2008-07-03 2010-01-07 Life Technologies Corporation Methylation analysis of mate pairs
WO2010051978A1 (en) * 2008-11-06 2010-05-14 Roche Diagnostics Gmbh Suppression of secondary capture in microarray assays
WO2010122506A2 (en) * 2009-04-21 2010-10-28 Cellectis Meganuclease variants cleaving at least one target in the genome of a retrovirus and uses thereof

Family Cites Families (11)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2006084131A2 (en) 2005-02-01 2006-08-10 The Government Of The United States Of America, As Represented By The Secretary, Department Of Health And Human Services Furin inhibitors and alpha-defensins for the treatment or prevention of papillomavirus infection
US8262900B2 (en) 2006-12-14 2012-09-11 Life Technologies Corporation Methods and apparatus for measuring analytes using large scale FET arrays
EP2677308B1 (en) 2006-12-14 2017-04-26 Life Technologies Corporation Method for fabricating large scale FET arrays
US8349167B2 (en) 2006-12-14 2013-01-08 Life Technologies Corporation Methods and apparatus for detecting molecular interactions using FET arrays
US7932034B2 (en) 2006-12-20 2011-04-26 The Board Of Trustees Of The Leland Stanford Junior University Heat and pH measurement for sequencing of DNA
US8202691B2 (en) 2008-01-25 2012-06-19 Illumina, Inc. Uniform fragmentation of DNA using binding proteins
GB2461127B (en) 2008-06-25 2010-07-14 Ion Torrent Systems Inc Methods and apparatus for measuring analytes using large scale FET arrays
US8546128B2 (en) 2008-10-22 2013-10-01 Life Technologies Corporation Fluidics system for sequential delivery of reagents
US20100301398A1 (en) 2009-05-29 2010-12-02 Ion Torrent Systems Incorporated Methods and apparatus for measuring analytes
US20100137143A1 (en) 2008-10-22 2010-06-03 Ion Torrent Systems Incorporated Methods and apparatus for measuring analytes
US8673627B2 (en) 2009-05-29 2014-03-18 Life Technologies Corporation Apparatus and methods for performing electrochemical reactions

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030232348A1 (en) * 2002-06-17 2003-12-18 Affymetrix, Inc. Complexity management of genomic DNA by locus specific amplification
WO2010003153A2 (en) * 2008-07-03 2010-01-07 Life Technologies Corporation Methylation analysis of mate pairs
WO2010051978A1 (en) * 2008-11-06 2010-05-14 Roche Diagnostics Gmbh Suppression of secondary capture in microarray assays
WO2010122506A2 (en) * 2009-04-21 2010-10-28 Cellectis Meganuclease variants cleaving at least one target in the genome of a retrovirus and uses thereof

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
DATABASE Geneseq [online] 23 December 2010 (2010-12-23), "HIV1_8 DNA amplicon flanking adaptor, SEQ ID 371.", XP002687890, retrieved from EBI accession no. GSN:AYL45091 Database accession no. AYL45091 *
LEE HANE ET AL: "Improving the efficiency of genomic loci capture using oligonucleotide arrays for high throughput resequencing", BMC GENOMICS, BIOMED CENTRAL LTD, LONDON, UK, vol. 10, no. 646, 31 December 2009 (2009-12-31), pages 1 - 12, XP002580272, ISSN: 1471-2164, DOI: 10.1186/1471-2164-10-646 *

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