WO2003050242A3 - Dna amplification and sequencing using dna molecules generated by random fragmentation - Google Patents

Dna amplification and sequencing using dna molecules generated by random fragmentation Download PDF

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Publication number
WO2003050242A3
WO2003050242A3 PCT/US2002/037322 US0237322W WO03050242A3 WO 2003050242 A3 WO2003050242 A3 WO 2003050242A3 US 0237322 W US0237322 W US 0237322W WO 03050242 A3 WO03050242 A3 WO 03050242A3
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Prior art keywords
dna
fragmentation
random fragmentation
sequencing
present
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PCT/US2002/037322
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French (fr)
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WO2003050242A2 (en
Inventor
Vladimir L Makarov
Irina Sleptsova
Emmanuel Kamberov
Eric Bruening
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Rubicon Genomics Inc
Vladimir L Makarov
Irina Sleptsova
Emmanuel Kamberov
Eric Bruening
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Application filed by Rubicon Genomics Inc, Vladimir L Makarov, Irina Sleptsova, Emmanuel Kamberov, Eric Bruening filed Critical Rubicon Genomics Inc
Priority to AU2002359436A priority Critical patent/AU2002359436A1/en
Priority to JP2003551264A priority patent/JP2005535283A/en
Priority to EP02793975A priority patent/EP1451365A4/en
Publication of WO2003050242A2 publication Critical patent/WO2003050242A2/en
Publication of WO2003050242A3 publication Critical patent/WO2003050242A3/en

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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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6853—Nucleic acid amplification reactions using modified primers or templates
    • C12Q1/6855—Ligating adaptors
    • 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
    • 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
    • C12Q1/6846—Common amplification features
    • 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

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

Abstract

The present invention is directed to methods to prepare a DNA molecule or a plurality of DNA molecules by random fragmentation. In some embodiments, the present invention regards preparing a template for DNA sequencing by random fragmentation. In specific embodiments, the random fragmentation comprises chemical fragmentation, mechanical fragmentation, or enzymatic fragmentation. In further specific embodiments, a universal sequence is attached to the 3' end of the DNA fragments, such as by ligation of an adaptor sequence or by homopolymeric tailing with terminal deoxynucleotidyltransferase. In other embodiments, a library is prepared with methods of the present invention.
PCT/US2002/037322 2001-11-13 2002-11-13 Dna amplification and sequencing using dna molecules generated by random fragmentation WO2003050242A2 (en)

Priority Applications (3)

Application Number Priority Date Filing Date Title
AU2002359436A AU2002359436A1 (en) 2001-11-13 2002-11-13 Dna amplification and sequencing using dna molecules generated by random fragmentation
JP2003551264A JP2005535283A (en) 2001-11-13 2002-11-13 DNA amplification and sequencing using DNA molecules generated by random fragmentation
EP02793975A EP1451365A4 (en) 2001-11-13 2002-11-13 Dna amplification and sequencing using dna molecules generated by random fragmentation

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US33822401P 2001-11-13 2001-11-13
US60/338,224 2001-11-13

Publications (2)

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WO2003050242A2 WO2003050242A2 (en) 2003-06-19
WO2003050242A3 true WO2003050242A3 (en) 2003-10-23

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US (4) US7655791B2 (en)
EP (1) EP1451365A4 (en)
JP (1) JP2005535283A (en)
AU (1) AU2002359436A1 (en)
WO (1) WO2003050242A2 (en)

Families Citing this family (145)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7875440B2 (en) * 1998-05-01 2011-01-25 Arizona Board Of Regents Method of determining the nucleotide sequence of oligonucleotides and DNA molecules
AU2002359436A1 (en) 2001-11-13 2003-06-23 Rubicon Genomics Inc. Dna amplification and sequencing using dna molecules generated by random fragmentation
US20090124514A1 (en) * 2003-02-26 2009-05-14 Perlegen Sciences, Inc. Selection probe amplification
US20060183132A1 (en) * 2005-02-14 2006-08-17 Perlegen Sciences, Inc. Selection probe amplification
DK2374900T3 (en) 2003-03-07 2016-10-17 Rubicon Genomics Inc Polynucleotides for amplification and analysis of the total genomic and total transcription libraries generated by a DNA polymerization
EP1606417A2 (en) * 2003-03-07 2005-12-21 Rubicon Genomics Inc. In vitro dna immortalization and whole genome amplification using libraries generated from randomly fragmented dna
US8206913B1 (en) 2003-03-07 2012-06-26 Rubicon Genomics, Inc. Amplification and analysis of whole genome and whole transcriptome libraries generated by a DNA polymerization process
WO2005029040A2 (en) * 2003-09-18 2005-03-31 Parallele Biosciences, Inc. System and methods for enhancing signal-to-noise ratios of microarray-based measurements
EP2292795B1 (en) 2003-10-21 2015-01-07 Orion Genomics, LLC Differential enzymatic fragmatation
EP1564306B1 (en) * 2004-02-17 2013-08-07 Affymetrix, Inc. Methods for fragmenting and labeling DNA
US7459274B2 (en) * 2004-03-02 2008-12-02 Orion Genomics Llc Differential enzymatic fragmentation by whole genome amplification
CA2902980A1 (en) * 2004-03-08 2005-09-29 Rubicon Genomics, Inc. Methods and compositions for generating and amplifying dna libraries for sensitive detection and analysis of dna methylation
US20060035251A1 (en) * 2004-06-30 2006-02-16 Whitehead Institute For Biomedical Research Novel methods for high-throughput genome-wide location analysis
US20060073506A1 (en) 2004-09-17 2006-04-06 Affymetrix, Inc. Methods for identifying biological samples
EP1645640B1 (en) 2004-10-05 2013-08-21 Affymetrix, Inc. Method for detecting chromosomal translocations
US7968287B2 (en) 2004-10-08 2011-06-28 Medical Research Council Harvard University In vitro evolution in microfluidic systems
EP1924705A1 (en) 2005-08-02 2008-05-28 Rubicon Genomics, Inc. Isolation of cpg islands by thermal segregation and enzymatic selection-amplification method
WO2007018601A1 (en) 2005-08-02 2007-02-15 Rubicon Genomics, Inc. Compositions and methods for processing and amplification of dna, including using multiple enzymes in a single reaction
JP5452021B2 (en) * 2005-12-22 2014-03-26 キージーン ナムローゼ フェンノートシャップ High-throughput AFLP polymorphism detection method
US9012184B2 (en) * 2006-02-08 2015-04-21 Illumina Cambridge Limited End modification to prevent over-representation of fragments
DE102006020885A1 (en) 2006-05-05 2007-11-08 Qiagen Gmbh Inserting a tag sequence into a nucleic acid comprises using an anchor oligonucleotide comprising a hybridizing anchor sequence and a nonhybridizing tag-template sequence
EP2021113A2 (en) 2006-05-11 2009-02-11 Raindance Technologies, Inc. Microfluidic devices
WO2008045575A2 (en) * 2006-10-13 2008-04-17 J. Craig Venter Institute, Inc. Sequencing method
WO2008097559A2 (en) 2007-02-06 2008-08-14 Brandeis University Manipulation of fluids and reactions in microfluidic systems
US8592221B2 (en) 2007-04-19 2013-11-26 Brandeis University Manipulation of fluids, fluid components and reactions in microfluidic systems
JP2009000035A (en) * 2007-06-20 2009-01-08 Hitachi Ltd Long base nucleic acid amplification method
US8008010B1 (en) * 2007-06-27 2011-08-30 Applied Biosystems, Llc Chimeric oligonucleotides for ligation-enhanced nucleic acid detection, methods and compositions therefor
ES2605237T3 (en) 2007-09-17 2017-03-13 Mdxhealth Sa Novel markers for bladder cancer detection
US9695469B2 (en) 2008-03-17 2017-07-04 Stichting Genetwister Ip Expression-linked gene discovery
WO2010009365A1 (en) 2008-07-18 2010-01-21 Raindance Technologies, Inc. Droplet libraries
US12038438B2 (en) 2008-07-18 2024-07-16 Bio-Rad Laboratories, Inc. Enzyme quantification
US9388471B2 (en) 2009-03-13 2016-07-12 Mdxhealth Sa Methylation of the GATA4 gene in urine samples as a marker for bladder cancer detection
EP2414541B8 (en) * 2009-03-31 2014-09-10 Centre Hospitalier Universitaire Vaudois Methylation ligation-dependent macroarray (mlm)
US8835358B2 (en) 2009-12-15 2014-09-16 Cellular Research, Inc. Digital counting of individual molecules by stochastic attachment of diverse labels
JP2013514079A (en) 2009-12-17 2013-04-25 キージーン・エン・フェー Whole genome sequencing based on restriction enzymes
EP2534267B1 (en) 2010-02-12 2018-04-11 Raindance Technologies, Inc. Digital analyte analysis
US9399797B2 (en) 2010-02-12 2016-07-26 Raindance Technologies, Inc. Digital analyte analysis
US10787701B2 (en) 2010-04-05 2020-09-29 Prognosys Biosciences, Inc. Spatially encoded biological assays
US20190300945A1 (en) 2010-04-05 2019-10-03 Prognosys Biosciences, Inc. Spatially Encoded Biological Assays
US9371598B2 (en) 2010-04-05 2016-06-21 Prognosys Biosciences, Inc. Spatially encoded biological assays
US11031095B2 (en) 2010-08-06 2021-06-08 Ariosa Diagnostics, Inc. Assay systems for determination of fetal copy number variation
US20120034603A1 (en) 2010-08-06 2012-02-09 Tandem Diagnostics, Inc. Ligation-based detection of genetic variants
US10533223B2 (en) 2010-08-06 2020-01-14 Ariosa Diagnostics, Inc. Detection of target nucleic acids using hybridization
US20130261003A1 (en) 2010-08-06 2013-10-03 Ariosa Diagnostics, In. Ligation-based detection of genetic variants
US20130040375A1 (en) 2011-08-08 2013-02-14 Tandem Diagnotics, Inc. Assay systems for genetic analysis
US11203786B2 (en) 2010-08-06 2021-12-21 Ariosa Diagnostics, Inc. Detection of target nucleic acids using hybridization
US20140342940A1 (en) 2011-01-25 2014-11-20 Ariosa Diagnostics, Inc. Detection of Target Nucleic Acids using Hybridization
US10167508B2 (en) 2010-08-06 2019-01-01 Ariosa Diagnostics, Inc. Detection of genetic abnormalities
US8700338B2 (en) 2011-01-25 2014-04-15 Ariosa Diagnosis, Inc. Risk calculation for evaluation of fetal aneuploidy
EP3447155A1 (en) 2010-09-30 2019-02-27 Raindance Technologies, Inc. Sandwich assays in droplets
US8756020B2 (en) 2011-01-25 2014-06-17 Ariosa Diagnostics, Inc. Enhanced risk probabilities using biomolecule estimations
US11270781B2 (en) 2011-01-25 2022-03-08 Ariosa Diagnostics, Inc. Statistical analysis for non-invasive sex chromosome aneuploidy determination
US10131947B2 (en) 2011-01-25 2018-11-20 Ariosa Diagnostics, Inc. Noninvasive detection of fetal aneuploidy in egg donor pregnancies
WO2012103031A2 (en) 2011-01-25 2012-08-02 Ariosa Diagnostics, Inc. Detection of genetic abnormalities
US9994897B2 (en) 2013-03-08 2018-06-12 Ariosa Diagnostics, Inc. Non-invasive fetal sex determination
EP2673614B1 (en) 2011-02-11 2018-08-01 Raindance Technologies, Inc. Method for forming mixed droplets
EP2675819B1 (en) 2011-02-18 2020-04-08 Bio-Rad Laboratories, Inc. Compositions and methods for molecular labeling
WO2012118745A1 (en) 2011-02-28 2012-09-07 Arnold Oliphant Assay systems for detection of aneuploidy and sex determination
US9598281B2 (en) 2011-03-03 2017-03-21 The Regents Of The University Of California Nanopipette apparatus for manipulating cells
CN103502804B (en) 2011-03-04 2015-07-22 加利福尼亚大学董事会 Nanopore device for reversible ion and molecule sensing or migration
GB201106254D0 (en) 2011-04-13 2011-05-25 Frisen Jonas Method and product
EP3709018A1 (en) 2011-06-02 2020-09-16 Bio-Rad Laboratories, Inc. Microfluidic apparatus for identifying components of a chemical reaction
US8841071B2 (en) * 2011-06-02 2014-09-23 Raindance Technologies, Inc. Sample multiplexing
US9926552B2 (en) * 2011-06-06 2018-03-27 Cornell University Microfluidic device for extracting, isolating, and analyzing DNA from cells
US8658430B2 (en) 2011-07-20 2014-02-25 Raindance Technologies, Inc. Manipulating droplet size
US8712697B2 (en) 2011-09-07 2014-04-29 Ariosa Diagnostics, Inc. Determination of copy number variations using binomial probability calculations
US9725765B2 (en) 2011-09-09 2017-08-08 The Board Of Trustees Of The Leland Stanford Junior University Methods for obtaining a sequence
KR101295784B1 (en) * 2011-10-31 2013-08-12 삼성에스디에스 주식회사 Apparatus and method for generating novel sequence in target genome sequence
CA3218231A1 (en) 2012-02-27 2013-09-06 Becton, Dickinson And Company Compositions and kits for molecular counting
WO2013130512A2 (en) 2012-02-27 2013-09-06 The University Of North Carolina At Chapel Hill Methods and uses for molecular tags
JP6509723B2 (en) * 2012-03-13 2019-05-08 スウィフト バイオサイエンシーズ， インコーポレイテッド Methods and compositions for size-controlled homopolymeric tailing of substrate polynucleotides by nucleic acid polymerase
US10289800B2 (en) 2012-05-21 2019-05-14 Ariosa Diagnostics, Inc. Processes for calculating phased fetal genomic sequences
EP3514243B1 (en) 2012-05-21 2022-08-17 The Scripps Research Institute Methods of sample preparation
WO2014015269A1 (en) 2012-07-19 2014-01-23 Ariosa Diagnostics, Inc. Multiplexed sequential ligation-based detection of genetic variants
WO2014031954A1 (en) 2012-08-23 2014-02-27 Tufts University Homopolymer mediated nucleic acid amplification
DK3511423T4 (en) 2012-10-17 2024-07-29 Spatial Transcriptomics Ab METHODS AND PRODUCT FOR OPTIMIZING LOCALIZED OR SPATIAL DETECTION OF GENE EXPRESSION IN A TISSUE SAMPLE
EP2728013A1 (en) * 2012-10-31 2014-05-07 Universitätsspital Basel Method for the simultaneous amplification of a plurality of different nucleic acid target sequences
EP2959019B1 (en) * 2013-02-20 2019-09-04 Emory University Methods of sequencing nucleic acids in mixtures and compositions related thereto
EP2972352B1 (en) 2013-03-14 2019-05-08 The Regents of the University of California Nanopipette device and method for subcellular analysis
WO2014150938A1 (en) * 2013-03-15 2014-09-25 Dana-Farber Cancer Institute, Inc. Methods for generating nucleic acid molecule fragments having a customized size distribution
ES2775213T3 (en) 2013-06-13 2020-07-24 Ariosa Diagnostics Inc Statistical analysis for the non-invasive determination of aneuploidies of the sex chromosomes
US9868979B2 (en) 2013-06-25 2018-01-16 Prognosys Biosciences, Inc. Spatially encoded biological assays using a microfluidic device
RU2698125C2 (en) * 2013-08-19 2019-08-22 Эбботт Молекьюлар Инк. Libraries for next generation sequencing
CN110964796B (en) 2013-08-28 2024-04-05 贝克顿迪金森公司 Large-scale parallel single cell analysis
US11901041B2 (en) 2013-10-04 2024-02-13 Bio-Rad Laboratories, Inc. Digital analysis of nucleic acid modification
US9944977B2 (en) 2013-12-12 2018-04-17 Raindance Technologies, Inc. Distinguishing rare variations in a nucleic acid sequence from a sample
GB201403216D0 (en) * 2014-02-24 2014-04-09 Cambridge Epigenetix Ltd Nucleic acid sample preparation
EP3913066A1 (en) 2014-09-09 2021-11-24 Igenomx International Genomics Corporation Compositions for rapid nucleic acid library preparation
GB201502152D0 (en) 2015-02-10 2015-03-25 Nuclera Nucleics Ltd Novel use
FI3901281T3 (en) 2015-04-10 2023-01-31 Spatially distinguished, multiplex nucleic acid analysis of biological specimens
JP6599635B2 (en) * 2015-05-08 2019-10-30 シスメックス株式会社 Heat treatment condition estimation apparatus and method, nucleic acid fragmentation system and method, and computer program
US20180305748A1 (en) 2015-10-18 2018-10-25 Affymetrix, Inc. Multiallelic Genotyping of Single Nucleotide Polymorphisms and Indels
US20190055592A1 (en) * 2016-03-31 2019-02-21 Two Pore Guys, Inc. Nanopore Discrimination of Target Polynucleotides from Sample Background by Fragmentation and Payload Binding
US11486873B2 (en) 2016-03-31 2022-11-01 Ontera Inc. Multipore determination of fractional abundance of polynucleotide sequences in a sample
WO2017205304A1 (en) 2016-05-22 2017-11-30 Cornell University Single cell whole genome amplification via micropillar arrays under flow conditions
KR101803472B1 (en) * 2016-08-11 2017-12-28 한국과학기술원 genome-originated artificial ncRNA expression library and method of preparing the same
JP6941680B2 (en) 2016-10-24 2021-09-29 ジェネインフォセック、インコーポレイテッド Concealment of information existing in nucleic acids
EP3800469A1 (en) 2016-10-24 2021-04-07 Ontera Inc. Fractional abundance of polynucleotide sequences in a sample
KR20190133711A (en) * 2017-03-24 2019-12-03 싱가포르국립대학교 Multiple Detection Method of Molecules
US11441174B2 (en) 2017-06-02 2022-09-13 Affymetrix, Inc. Array-based methods for analysing mixed samples using differently labelled allele-specific probes
US11603557B2 (en) 2017-06-02 2023-03-14 Affymetrix, Inc. Array-based methods for analysing mixed samples using differently labelled allele-specific probes
EP3655572A4 (en) 2017-07-17 2021-03-24 Seqonce Biosciences, Inc. Rapid library construction for high throughput sequencing
CA3096161A1 (en) * 2018-03-28 2019-10-03 Berkeley Lights, Inc. Methods for preparation of nucleic acid sequencing libraries
US11519033B2 (en) 2018-08-28 2022-12-06 10X Genomics, Inc. Method for transposase-mediated spatial tagging and analyzing genomic DNA in a biological sample
US10876148B2 (en) 2018-11-14 2020-12-29 Element Biosciences, Inc. De novo surface preparation and uses thereof
US10704094B1 (en) 2018-11-14 2020-07-07 Element Biosciences, Inc. Multipart reagents having increased avidity for polymerase binding
US20200149095A1 (en) * 2018-11-14 2020-05-14 Element Biosciences, Inc. Low binding supports for improved solid-phase dna hybridization and amplification
US11649485B2 (en) 2019-01-06 2023-05-16 10X Genomics, Inc. Generating capture probes for spatial analysis
US11926867B2 (en) 2019-01-06 2024-03-12 10X Genomics, Inc. Generating capture probes for spatial analysis
CN109680048A (en) * 2019-01-16 2019-04-26 上海翊圣生物科技有限公司 A method of adding dA tail efficiency for detecting enzyme
WO2020243579A1 (en) 2019-05-30 2020-12-03 10X Genomics, Inc. Methods of detecting spatial heterogeneity of a biological sample
EP4025710A4 (en) * 2019-09-06 2023-12-13 Honeycomb Biotechnologies, Inc. Methods and systems for rna-seq profiling
EP4055185A1 (en) 2019-11-08 2022-09-14 10X Genomics, Inc. Spatially-tagged analyte capture agents for analyte multiplexing
WO2021092433A2 (en) 2019-11-08 2021-05-14 10X Genomics, Inc. Enhancing specificity of analyte binding
ES2946357T3 (en) 2019-12-23 2023-07-17 10X Genomics Inc Methods for spatial analysis using RNA template ligation
JP2023511279A (en) 2020-01-13 2023-03-17 フルーエント バイオサイエンシーズ インコーポレイテッド Single cell sequencing
US11732299B2 (en) 2020-01-21 2023-08-22 10X Genomics, Inc. Spatial assays with perturbed cells
US11702693B2 (en) 2020-01-21 2023-07-18 10X Genomics, Inc. Methods for printing cells and generating arrays of barcoded cells
US11821035B1 (en) 2020-01-29 2023-11-21 10X Genomics, Inc. Compositions and methods of making gene expression libraries
US11898205B2 (en) 2020-02-03 2024-02-13 10X Genomics, Inc. Increasing capture efficiency of spatial assays
US11732300B2 (en) 2020-02-05 2023-08-22 10X Genomics, Inc. Increasing efficiency of spatial analysis in a biological sample
US11835462B2 (en) 2020-02-11 2023-12-05 10X Genomics, Inc. Methods and compositions for partitioning a biological sample
US11891654B2 (en) 2020-02-24 2024-02-06 10X Genomics, Inc. Methods of making gene expression libraries
US11926863B1 (en) 2020-02-27 2024-03-12 10X Genomics, Inc. Solid state single cell method for analyzing fixed biological cells
US11768175B1 (en) 2020-03-04 2023-09-26 10X Genomics, Inc. Electrophoretic methods for spatial analysis
US11866782B2 (en) 2020-03-16 2024-01-09 Fluent Biosciences Inc. Multi-omic analysis in monodisperse droplets
CN115916999A (en) 2020-04-22 2023-04-04 10X基因组学有限公司 Methods for spatial analysis using targeted RNA depletion
WO2021237087A1 (en) 2020-05-22 2021-11-25 10X Genomics, Inc. Spatial analysis to detect sequence variants
WO2021236929A1 (en) 2020-05-22 2021-11-25 10X Genomics, Inc. Simultaneous spatio-temporal measurement of gene expression and cellular activity
WO2021242834A1 (en) 2020-05-26 2021-12-02 10X Genomics, Inc. Method for resetting an array
WO2021247543A2 (en) 2020-06-02 2021-12-09 10X Genomics, Inc. Nucleic acid library methods
CN116249785A (en) 2020-06-02 2023-06-09 10X基因组学有限公司 Space transcriptomics for antigen-receptor
US12031177B1 (en) 2020-06-04 2024-07-09 10X Genomics, Inc. Methods of enhancing spatial resolution of transcripts
WO2021252499A1 (en) 2020-06-08 2021-12-16 10X Genomics, Inc. Methods of determining a surgical margin and methods of use thereof
WO2021252591A1 (en) 2020-06-10 2021-12-16 10X Genomics, Inc. Methods for determining a location of an analyte in a biological sample
AU2021294334A1 (en) 2020-06-25 2023-02-02 10X Genomics, Inc. Spatial analysis of DNA methylation
US11981960B1 (en) 2020-07-06 2024-05-14 10X Genomics, Inc. Spatial analysis utilizing degradable hydrogels
US11761038B1 (en) 2020-07-06 2023-09-19 10X Genomics, Inc. Methods for identifying a location of an RNA in a biological sample
US11981958B1 (en) 2020-08-20 2024-05-14 10X Genomics, Inc. Methods for spatial analysis using DNA capture
US11926822B1 (en) 2020-09-23 2024-03-12 10X Genomics, Inc. Three-dimensional spatial analysis
CA3200517A1 (en) * 2020-11-03 2022-05-12 Fluent Biosciences Inc. Systems and methods for making sequencing libraries
US11827935B1 (en) 2020-11-19 2023-11-28 10X Genomics, Inc. Methods for spatial analysis using rolling circle amplification and detection probes
WO2022140028A1 (en) 2020-12-21 2022-06-30 10X Genomics, Inc. Methods, compositions, and systems for capturing probes and/or barcodes
EP4301870A1 (en) 2021-03-18 2024-01-10 10X Genomics, Inc. Multiplex capture of gene and protein expression from a biological sample
EP4196605A1 (en) 2021-09-01 2023-06-21 10X Genomics, Inc. Methods, compositions, and kits for blocking a capture probe on a spatial array

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5759822A (en) * 1995-01-27 1998-06-02 Clontech Laboratories, Inc. Method for suppressing DNA fragment amplification during PCR

Family Cites Families (27)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6107023A (en) 1988-06-17 2000-08-22 Genelabs Technologies, Inc. DNA amplification and subtraction techniques
WO1990001065A1 (en) 1988-07-26 1990-02-08 Genelabs Incorporated Rna and dna amplification techniques
US5506100A (en) * 1990-10-11 1996-04-09 Indiana University Foundation Process and apparatus for fragmenting biomaterials
DE4218152A1 (en) 1992-06-02 1993-12-09 Boehringer Mannheim Gmbh Simultaneous sequencing of nucleic acids
NZ263779A (en) * 1993-04-16 1997-03-24 F B Investments Pty Ltd Former Method for random amplification of dna
US5648211A (en) 1994-04-18 1997-07-15 Becton, Dickinson And Company Strand displacement amplification using thermophilic enzymes
JPH08173164A (en) 1994-12-22 1996-07-09 Hitachi Ltd Preparation of dna
US5871820A (en) 1995-04-06 1999-02-16 General Electric Company Protection of thermal barrier coating with an impermeable barrier coating
US5814444A (en) 1995-06-07 1998-09-29 University Of Washington Methods for making and using single-chromosome amplfication libraries
US5789206A (en) * 1995-07-07 1998-08-04 Myriad Genetics, Inc. Method for ligating adaptors to nucleic acids which methods are useful for obtaining the ends of genes
GB9620769D0 (en) 1996-10-04 1996-11-20 Brax Genomics Ltd Nucleic acid sequencing
US5968743A (en) 1996-10-14 1999-10-19 Hitachi, Ltd. DNA sequencing method and reagents kit
US6060245A (en) 1996-12-13 2000-05-09 Stratagene Methods and adaptors for generating specific nucleic acid populations
US6117634A (en) 1997-03-05 2000-09-12 The Reagents Of The University Of Michigan Nucleic acid sequencing and mapping
US6197557B1 (en) 1997-03-05 2001-03-06 The Regents Of The University Of Michigan Compositions and methods for analysis of nucleic acids
KR20010005544A (en) 1997-03-21 2001-01-15 그레그 펄쓰 Extraction and utilisation of VNTR alleles
US6124120A (en) 1997-10-08 2000-09-26 Yale University Multiple displacement amplification
DE19813317A1 (en) 1998-03-26 1999-09-30 Roche Diagnostics Gmbh Nucleic acid amplification involving primer extension preamplification, especially for whole genome amplification
ES2172353T3 (en) 1998-09-18 2002-09-16 Micromet Ag AMPLIFICATION OF THE DNA OF A SINGLE CELL.
US6203989B1 (en) * 1998-09-30 2001-03-20 Affymetrix, Inc. Methods and compositions for amplifying detectable signals in specific binding assays
JP2002540802A (en) 1999-04-06 2002-12-03 イェール ユニバーシティ Fixed address analysis of sequence indicators
US7763421B2 (en) * 2000-06-05 2010-07-27 Ventana Medical Systems, Inc. Methods for producing nucleic acid hybridization probes that amplify hybridization signal by promoting network formation
US6825010B2 (en) 2001-04-16 2004-11-30 Applera Corporation Methods and compositions for nucleotide analysis
JP2002345466A (en) 2001-05-08 2002-12-03 Takara Bio Inc Method for amplifying dna
US6632611B2 (en) 2001-07-20 2003-10-14 Affymetrix, Inc. Method of target enrichment and amplification
AU2002359436A1 (en) * 2001-11-13 2003-06-23 Rubicon Genomics Inc. Dna amplification and sequencing using dna molecules generated by random fragmentation
CA2489360C (en) 2002-06-26 2013-01-29 Cold Spring Harbor Laboratory Methods and compositions for determining methylation profiles

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5759822A (en) * 1995-01-27 1998-06-02 Clontech Laboratories, Inc. Method for suppressing DNA fragment amplification during PCR

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US9410193B2 (en) 2016-08-09
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AU2002359436A8 (en) 2003-06-23
US8815504B2 (en) 2014-08-26

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