GB2590197A - Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples - Google Patents

Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples Download PDF

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Publication number
GB2590197A
GB2590197A GB2020171.1A GB202020171A GB2590197A GB 2590197 A GB2590197 A GB 2590197A GB 202020171 A GB202020171 A GB 202020171A GB 2590197 A GB2590197 A GB 2590197A
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GB
United Kingdom
Prior art keywords
nucleic acid
acid molecules
sequences
biological sample
subset
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.)
Withdrawn
Application number
GB2020171.1A
Other languages
English (en)
Other versions
GB202020171D0 (en
Inventor
West John
Chen Richard
Haudenschild Christian
Bartha Gabor
Luo Shujun
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.)
Personalis Inc
Original Assignee
Personalis Inc
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 Personalis Inc filed Critical Personalis Inc
Publication of GB202020171D0 publication Critical patent/GB202020171D0/en
Publication of GB2590197A publication Critical patent/GB2590197A/en
Withdrawn legal-status Critical Current

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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
    • C12Q1/6869—Methods for sequencing
    • C12Q1/6874—Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
    • C12Q1/6886—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • 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
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
    • 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
    • C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
    • C12Q1/701—Specific hybridization probes
    • C12Q1/708—Specific hybridization probes for papilloma
    • 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
    • C12Q2535/00—Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
    • C12Q2535/122—Massive parallel sequencing
    • 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
    • C12Q2537/00—Reactions characterised by the reaction format or use of a specific feature
    • C12Q2537/10—Reactions characterised by the reaction format or use of a specific feature the purpose or use of
    • C12Q2537/159—Reduction of complexity, e.g. amplification of subsets, removing duplicated genomic regions
    • 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
    • C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
    • C12Q2565/50—Detection characterised by immobilisation to a surface
    • C12Q2565/501—Detection characterised by immobilisation to a surface being an array of oligonucleotides
    • C—CHEMISTRY; METALLURGY
    • C40—COMBINATORIAL TECHNOLOGY
    • C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B50/00—Methods of creating libraries, e.g. combinatorial synthesis
    • C40B50/06—Biochemical methods, e.g. using enzymes or whole viable microorganisms

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Genetics & Genomics (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • General Engineering & Computer Science (AREA)
  • Pathology (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Hospice & Palliative Care (AREA)
  • Oncology (AREA)
  • Virology (AREA)
  • General Chemical & Material Sciences (AREA)
  • Medicinal Chemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
GB2020171.1A 2018-05-31 2019-05-24 Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples Withdrawn GB2590197A (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201862678475P 2018-05-31 2018-05-31
US16/056,982 US10801064B2 (en) 2018-05-31 2018-08-07 Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples
PCT/US2019/034023 WO2019231856A1 (en) 2018-05-31 2019-05-24 Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples

Publications (2)

Publication Number Publication Date
GB202020171D0 GB202020171D0 (en) 2021-02-03
GB2590197A true GB2590197A (en) 2021-06-23

Family

ID=68694486

Family Applications (1)

Application Number Title Priority Date Filing Date
GB2020171.1A Withdrawn GB2590197A (en) 2018-05-31 2019-05-24 Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples

Country Status (7)

Country Link
US (2) US10801064B2 (https=)
EP (2) EP3802854B1 (https=)
JP (3) JP2021525515A (https=)
CN (2) CN112888794B (https=)
GB (1) GB2590197A (https=)
SG (1) SG11202011464VA (https=)
WO (1) WO2019231856A1 (https=)

Families Citing this family (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN105190656B (zh) 2013-01-17 2018-01-16 佩索纳里斯公司 用于遗传分析的方法和系统
US10125399B2 (en) 2014-10-30 2018-11-13 Personalis, Inc. Methods for using mosaicism in nucleic acids sampled distal to their origin
US11299783B2 (en) 2016-05-27 2022-04-12 Personalis, Inc. Methods and systems for genetic analysis
US10801064B2 (en) 2018-05-31 2020-10-13 Personalis, Inc. Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples
US11814750B2 (en) 2018-05-31 2023-11-14 Personalis, Inc. Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples
CN109321569B (zh) * 2018-10-29 2022-04-12 迈杰转化医学研究(苏州)有限公司 一种引物探针组合物及其应用
EP3971902B1 (en) * 2019-05-15 2023-01-18 BGI Genomics Co., Limited Base mutation detection method and apparatus based on sequencing data, and storage medium
EP4055610A4 (en) 2019-11-05 2023-11-29 Personalis, Inc. ESTIMATION OF TUMOR PURITY FROM SINGLE SAMPLES
CN112501280B (zh) * 2020-01-22 2023-03-17 微岩医学科技(北京)有限公司 一种基于高通量测序的泡型包虫高灵敏度检测方法
CA3174332A1 (en) 2020-04-21 2021-10-28 Jason PERERA Tcr/bcr profiling
CN111518956B (zh) * 2020-05-20 2023-06-23 广西壮族自治区兽医研究所 一种检测禽呼肠孤病毒的纳米pcr方法、试剂盒及应用
EP4413580A4 (en) 2021-10-05 2025-08-13 Personalis Inc PERSONALIZED TESTS FOR PERSONALIZED CANCER MONITORING
CN113999898B (zh) * 2021-12-31 2022-04-19 北京恩泽康泰生物科技有限公司 m6A RNA甲基化位点检测方法
US20230212561A1 (en) * 2022-01-04 2023-07-06 Enumerix, Inc. Accurate sequencing library generation via ultra-high partitioning
CN114369650B (zh) * 2022-03-21 2022-06-17 深圳市仙湖植物园(深圳市园林研究中心) 捕获探针的设计方法、捕获探针及其应用

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20150057160A1 (en) * 2011-07-22 2015-02-26 Ucl Business Plc Pathogen screening
US20160019341A1 (en) * 2013-08-30 2016-01-21 Personalis, Inc. Methods and systems for genomic analysis

Family Cites Families (142)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4458066A (en) 1980-02-29 1984-07-03 University Patents, Inc. Process for preparing polynucleotides
US5242794A (en) 1984-12-13 1993-09-07 Applied Biosystems, Inc. Detection of specific sequences in nucleic acids
US4683202A (en) 1985-03-28 1987-07-28 Cetus Corporation Process for amplifying nucleic acid sequences
AU601021B2 (en) 1987-03-11 1990-08-30 Molecular Diagnostics, Inc. Assay for necleic acid sequences in a sample
US4988617A (en) 1988-03-25 1991-01-29 California Institute Of Technology Method of detecting a nucleotide change in nucleic acids
US5143854A (en) 1989-06-07 1992-09-01 Affymax Technologies N.V. Large scale photolithographic solid phase synthesis of polypeptides and receptor binding screening thereof
US5494810A (en) 1990-05-03 1996-02-27 Cornell Research Foundation, Inc. Thermostable ligase-mediated DNA amplifications system for the detection of genetic disease
ES2264239T3 (es) 1990-06-27 2006-12-16 Princeton University Complejo de proteinas p53/p90'.
US5412087A (en) 1992-04-24 1995-05-02 Affymax Technologies N.V. Spatially-addressable immobilization of oligonucleotides and other biological polymers on surfaces
JP2553322Y2 (ja) 1992-05-11 1997-11-05 サンデン株式会社 飲料抽出装置のフィルタ送り機構
US5432065A (en) 1993-03-30 1995-07-11 United States Biochemical Corporation Cycle sequencing with non-thermostable DNA polymerases
US5472672A (en) 1993-10-22 1995-12-05 The Board Of Trustees Of The Leland Stanford Junior University Apparatus and method for polymer synthesis using arrays
US6045996A (en) 1993-10-26 2000-04-04 Affymetrix, Inc. Hybridization assays on oligonucleotide arrays
WO1995030139A1 (en) 1994-04-29 1995-11-09 Perkin-Elmer Corporation System for real time detection of nucleic acid amplification products
US5641658A (en) 1994-08-03 1997-06-24 Mosaic Technologies, Inc. Method for performing amplification of nucleic acid with two primers bound to a single solid support
US7122304B2 (en) 1997-05-12 2006-10-17 Whatman, Inc. Methods for the storage and synthesis of nucleic acids using a solid support
US7921068B2 (en) 1998-05-01 2011-04-05 Health Discovery Corporation Data mining platform for knowledge discovery from heterogeneous data types and/or heterogeneous data sources
AU4333799A (en) 1998-06-04 1999-12-20 Board Of Regents, The University Of Texas System Digital optical chemistry micromirror imager
US6212519B1 (en) 1998-06-30 2001-04-03 Simulconsult, Inc. Systems and methods for quantifying qualitative medical expressions
AR021833A1 (es) 1998-09-30 2002-08-07 Applied Research Systems Metodos de amplificacion y secuenciacion de acido nucleico
US6444223B1 (en) 1999-05-28 2002-09-03 Alkermes Controlled Therapeutics, Inc. Method of producing submicron particles of a labile agent and use thereof
US6818395B1 (en) 1999-06-28 2004-11-16 California Institute Of Technology Methods and apparatus for analyzing polynucleotide sequences
US7244559B2 (en) 1999-09-16 2007-07-17 454 Life Sciences Corporation Method of sequencing a nucleic acid
US7211390B2 (en) 1999-09-16 2007-05-01 454 Life Sciences Corporation Method of sequencing a nucleic acid
US6582938B1 (en) 2001-05-11 2003-06-24 Affymetrix, Inc. Amplification of nucleic acids
US7582420B2 (en) 2001-07-12 2009-09-01 Illumina, Inc. Multiplex nucleic acid reactions
US7361488B2 (en) 2000-02-07 2008-04-22 Illumina, Inc. Nucleic acid detection methods using universal priming
US6807490B1 (en) 2000-02-15 2004-10-19 Mark W. Perlin Method for DNA mixture analysis
US6988040B2 (en) 2001-01-11 2006-01-17 Affymetrix, Inc. System, method, and computer software for genotyping analysis and identification of allelic imbalance
EP1368497A4 (en) 2001-03-12 2007-08-15 California Inst Of Techn METHODS AND APPARATUS FOR ANALYZING ASYNCHRONOUS BASE EXTENSION POLYNUCLEOTIDE SEQUENCES
US7211654B2 (en) 2001-03-14 2007-05-01 Regents Of The University Of Michigan Linkers and co-coupling agents for optimization of oligonucleotide synthesis and purification on solid supports
AU785425B2 (en) 2001-03-30 2007-05-17 Genetic Technologies Limited Methods of genomic analysis
US20070184436A1 (en) 2001-06-07 2007-08-09 Joel Myerson Generic capture probe arrays
US7083975B2 (en) 2002-02-01 2006-08-01 Roland Green Microarray synthesis instrument and method
DE60324253D1 (de) 2002-02-08 2008-12-04 Olympus Corp Spezifische multiplex-analyse von nukleinsäuren
EP1342794B1 (en) 2002-03-05 2005-12-14 Epigenomics AG Method and device for determination of tissue specificity of free floating DNA in bodily fluids
US7324928B2 (en) 2002-03-06 2008-01-29 Kitchen Scott G Method and system for determining phenotype from genotype
US7300788B2 (en) 2002-10-08 2007-11-27 Affymetrix, Inc. Method for genotyping polymorphisms in humans
WO2005003375A2 (en) 2003-01-29 2005-01-13 454 Corporation Methods of amplifying and sequencing nucleic acids
US7534561B2 (en) 2003-04-02 2009-05-19 Agilent Technologies, Inc. Nucleic acid array in situ fabrication methods and arrays produced using the same
WO2004092333A2 (en) 2003-04-09 2004-10-28 Omicia Inc. Methods of selection, reporting and analysis of genetic markers using broad based genetic profiling applications
AU2003902299A0 (en) 2003-05-13 2003-05-29 Flinders Medical Centre A method of analysing a marker nucleic acid molecule
WO2005014850A2 (en) 2003-08-06 2005-02-17 University Of Massachusetts Systems and methods for analyzing nucleic acid sequences
US20050086035A1 (en) 2003-09-02 2005-04-21 Pioneer Hi-Bred International, Inc. Computer systems and methods for genotype to phenotype mapping using molecular network models
US7169560B2 (en) 2003-11-12 2007-01-30 Helicos Biosciences Corporation Short cycle methods for sequencing polynucleotides
US20050250125A1 (en) 2003-12-19 2005-11-10 Novakoff James L Method for conducting pharmacogenomics-based studies
WO2005098046A2 (en) 2004-04-01 2005-10-20 Immunivest Corporation Methods for the determination of cell specific biomarkers
US7745118B2 (en) 2004-04-08 2010-06-29 Roche Nimblegen, Inc. Comparative genomic resequencing
WO2006047787A2 (en) 2004-10-27 2006-05-04 Exact Sciences Corporation Method for monitoring disease progression or recurrence
US20060278241A1 (en) 2004-12-14 2006-12-14 Gualberto Ruano Physiogenomic method for predicting clinical outcomes of treatments in patients
US20060184489A1 (en) 2004-12-17 2006-08-17 General Electric Company Genetic knowledgebase creation for personalized analysis of medical conditions
US9416422B2 (en) 2005-02-18 2016-08-16 Sloan-Kettering Institute For Cancer Research Methods for detecting minimum residual disease
ES2393318T3 (es) 2005-06-23 2012-12-20 Keygene N.V. Estrategias para la identificación y detección de alto rendimiento de polimorfismos
US8532930B2 (en) 2005-11-26 2013-09-10 Natera, Inc. Method for determining the number of copies of a chromosome in the genome of a target individual using genetic data from genetically related individuals
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
JPWO2007055244A1 (ja) 2005-11-08 2009-04-30 国立大学法人名古屋大学 遺伝子変異検出用アレイ及び検出方法
WO2007061881A2 (en) 2005-11-17 2007-05-31 Motif Biosciences, Inc. Systems and methods for the biometric analysis of index founder populations
EP3703058A1 (en) 2005-11-29 2020-09-02 Children's Hospital Medical Center A method of selecting a medication for a patient
US7282337B1 (en) 2006-04-14 2007-10-16 Helicos Biosciences Corporation Methods for increasing accuracy of nucleic acid sequencing
EP3260556B1 (en) 2006-05-31 2019-07-31 Sequenom, Inc. Methods for the extraction of nucleic acid from a sample
US8262900B2 (en) 2006-12-14 2012-09-11 Life Technologies Corporation Methods and apparatus for measuring analytes using 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
US7948015B2 (en) 2006-12-14 2011-05-24 Life Technologies Corporation Methods and apparatus for measuring analytes using large scale FET arrays
US7835871B2 (en) 2007-01-26 2010-11-16 Illumina, Inc. Nucleic acid sequencing system and method
US8140270B2 (en) 2007-03-22 2012-03-20 National Center For Genome Resources Methods and systems for medical sequencing analysis
WO2009099602A1 (en) 2008-02-04 2009-08-13 Massachusetts Institute Of Technology Selection of nucleic acids by solution hybridization to oligonucleotide baits
US20090326832A1 (en) 2008-06-27 2009-12-31 Microsoft Corporation Graphical models for the analysis of genome-wide associations
US20100035252A1 (en) 2008-08-08 2010-02-11 Ion Torrent Systems Incorporated Methods for sequencing individual nucleic acids under tension
GB2478065A (en) 2008-08-08 2011-08-24 Navigenics Inc Method and systems for personalized action plans
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
CN104195227B (zh) 2008-11-07 2017-04-12 适应生物技术公司 通过序列分析监测状况的方法
WO2010054589A1 (en) 2008-11-12 2010-05-20 The Chinese University Of Hong Kong Detection of hla genotype
WO2010059742A1 (en) 2008-11-18 2010-05-27 Collabrx, Inc. Individualized cancer treatment
WO2010099184A1 (en) 2009-02-24 2010-09-02 Baylor College Of Medicine Antigenic approach to the detection and isolation of microparticles associated with fetal dna
WO2010129301A2 (en) 2009-04-27 2010-11-11 New York University Method, computer-accessible medium and system for base-calling and alignment
WO2010127045A2 (en) 2009-04-29 2010-11-04 Complete Genomics, Inc. Method and system for calling variations in a sample polynucleotide sequence with respect to a reference polynucleotide sequence
US8673627B2 (en) 2009-05-29 2014-03-18 Life Technologies Corporation Apparatus and methods for performing electrochemical reactions
US8574835B2 (en) 2009-05-29 2013-11-05 Life Technologies Corporation Scaffolded nucleic acid polymer particles and methods of making and using
US9524369B2 (en) 2009-06-15 2016-12-20 Complete Genomics, Inc. Processing and analysis of complex nucleic acid sequence data
US20170147577A9 (en) 2009-09-30 2017-05-25 Gennady LAPIR Method and system for extraction
WO2011050341A1 (en) 2009-10-22 2011-04-28 National Center For Genome Resources Methods and systems for medical sequencing analysis
LT3783110T (lt) * 2009-11-05 2023-01-25 The Chinese University Of Hong Kong Vaisiaus genomo analizė iš motinos biologinio mėginio
HUE052213T2 (hu) 2009-11-06 2021-04-28 Univ Leland Stanford Junior Grafitkilökõdés nem invazív diagnosztizálása szervátültetett betegekben
US9323888B2 (en) 2010-01-19 2016-04-26 Verinata Health, Inc. Detecting and classifying copy number variation
CA2786564A1 (en) 2010-01-19 2011-07-28 Verinata Health, Inc. Identification of polymorphic sequences in mixtures of genomic dna by whole genome sequencing
WO2011103236A2 (en) 2010-02-18 2011-08-25 The Johns Hopkins University Personalized tumor biomarkers
US11322224B2 (en) 2010-05-18 2022-05-03 Natera, Inc. Methods for non-invasive prenatal ploidy calling
US10316362B2 (en) 2010-05-18 2019-06-11 Natera, Inc. Methods for simultaneous amplification of target loci
JP2013531983A (ja) * 2010-06-11 2013-08-15 パソジェニカ，インコーポレイテッド 多重生物検出のための核酸ならびにその使用および製造方法
DK3327148T3 (da) 2010-06-18 2021-04-12 Myriad Genetics Inc Fremgangsmåder til forudsigelse af status for brca1- og brca2-gener i en cancercelle
US20130102477A1 (en) 2010-06-23 2013-04-25 Ryan D. Morin Biomarkers for non-hodgkin lymphomas and uses thereof
CN103392182B (zh) 2010-08-02 2017-07-04 众有生物有限公司 用于发现遗传疾病中致病突变的系统和方法
WO2012027446A2 (en) 2010-08-24 2012-03-01 Mayo Foundation For Medical Education And Research Nucleic acid sequence analysis
ES2704303T3 (es) 2010-08-24 2019-03-15 Dana Farber Cancer Inst Inc Procedimientos para la predicción de una respuesta contra el cáncer
EP2614161B1 (en) 2010-09-09 2020-11-04 Fabric Genomics, Inc. Variant annotation, analysis and selection tool
WO2012040614A1 (en) 2010-09-23 2012-03-29 The Washington University Compositions and methods for detecting cancer metastasis
EP2625295B1 (en) 2010-10-08 2019-03-13 President and Fellows of Harvard College High-throughput immune sequencing
US10127346B2 (en) 2011-04-13 2018-11-13 The Board Of Trustees Of The Leland Stanford Junior University Systems and methods for interpreting a human genome using a synthetic reference sequence
HRP20211595T1 (hr) 2011-05-24 2022-01-21 BioNTech SE Individualizirana cjepiva protiv raka
US10347359B2 (en) 2011-06-16 2019-07-09 The Board Of Trustees Of The Leland Stanford Junior University Method and system for network modeling to enlarge the search space of candidate genes for diseases
US20130178389A1 (en) 2012-01-06 2013-07-11 Stanley N. Lapidus Composite assay for developmental disorders
EP3744857A1 (en) 2012-03-20 2020-12-02 University Of Washington Through Its Center For Commercialization Methods of lowering the error rate of massively parallel dna sequencing using duplex consensus sequencing
US8595219B1 (en) 2012-05-16 2013-11-26 Trans Union, Llc System and method for contextual and free format matching of addresses
EP2861788B1 (en) 2012-06-15 2018-10-10 Progenity, Inc. Methods of detecting diseases or conditions using circulating diseased cells
EP2903755B1 (de) 2012-10-02 2016-07-20 Binder + Co AG Vorrichtung und verfahren zur klassierung von polydispersem aufgabegut
EP3252174B1 (en) 2012-10-15 2020-07-01 Life Technologies Corporation Compositions, methods, systems and kits for target nucleic acid enrichment
EP2931922B1 (en) 2012-12-14 2018-10-17 Chronix Biomedical Personalized biomarkers for cancer
CN105190656B (zh) 2013-01-17 2018-01-16 佩索纳里斯公司 用于遗传分析的方法和系统
CN113337604A (zh) 2013-03-15 2021-09-03 莱兰斯坦福初级大学评议会 循环核酸肿瘤标志物的鉴别和用途
JP6308724B2 (ja) 2013-05-09 2018-04-11 ジェノダイブファーマ株式会社 Ｈｌａ遺伝子のマルチプレックスｄｎａタイピング方法及びキット
EP2818867A1 (en) 2013-06-27 2014-12-31 INSERM (Institut National de la Santé et de la Recherche Médicale) Antibodies conjugated to at least one nucleic acid molecule and their use in multiplex immuno-detection assays
US10174375B2 (en) 2013-09-20 2019-01-08 The Chinese University Of Hong Kong Sequencing analysis of circulating DNA to detect and monitor autoimmune diseases
GB2535066A (en) 2013-10-03 2016-08-10 Personalis Inc Methods for analyzing genotypes
CN105283555A (zh) 2013-10-20 2016-01-27 特罗瓦基因公司 核酸序列的合成和富集
KR102429186B1 (ko) 2013-10-21 2022-08-03 베리나타 헬스, 인코포레이티드 사본수 변동을 결정함에 있어서 검출의 감수성을 향상시키기 위한 방법
WO2015077717A1 (en) 2013-11-25 2015-05-28 The Broad Institute Inc. Compositions and methods for diagnosing, evaluating and treating cancer by means of the dna methylation status
CA2936107C (en) 2014-01-14 2022-09-13 University Of Utah Methods and systems for genome analysis
EP3957749A1 (en) 2014-04-21 2022-02-23 Natera, Inc. Detecting tumour specific mutations in biopsies with whole exome sequencing and in cell-free samples
EP3140427B1 (en) 2014-05-09 2020-10-14 Memorial Sloan Kettering Cancer Center Biomarkers for response to pi3k inhibitors
US20180173845A1 (en) 2014-06-05 2018-06-21 Natera, Inc. Systems and Methods for Detection of Aneuploidy
ES2741400T3 (es) 2014-07-18 2020-02-10 Univ Hong Kong Chinese Análisis de patrones de metilación de tejidos en mezcla de ADN
US20170253921A1 (en) 2014-10-13 2017-09-07 Life Technologies Corporation Methods, kits & compositions for determining gene copy numbers
US10125399B2 (en) 2014-10-30 2018-11-13 Personalis, Inc. Methods for using mosaicism in nucleic acids sampled distal to their origin
ES2790823T3 (es) 2014-11-14 2020-10-29 Liquid Genomics Inc Uso de ARN sin células circulante para el diagnóstico y/o la monitorización de cáncer
EP3227464B1 (en) 2014-12-05 2022-04-20 Foundation Medicine, Inc. Multigene analysis of tumor samples
CN105044108B (zh) * 2015-07-10 2018-08-24 港龙生物技术（深圳）有限公司 微阵列芯片点样质量自动化判断系统及判断方法
RU2729116C2 (ru) 2015-12-16 2020-08-04 Гритстоун Онколоджи, Инк. Идентификация, производство и применение неоантигенов
MX2018010362A (es) 2016-02-29 2019-03-28 Found Medicine Inc Metodos y sistemas para evaluar carga mutacional de tumores.
WO2017165463A1 (en) 2016-03-22 2017-09-28 Counsyl, Inc. Combinatorial dna screening
EP4488686A3 (en) 2016-04-14 2025-04-30 Guardant Health, Inc. Methods for early detection of cancer
US11299783B2 (en) 2016-05-27 2022-04-12 Personalis, Inc. Methods and systems for genetic analysis
GB2600627B (en) 2016-05-27 2022-12-07 Personalis Inc Personalized genetic testing
WO2018035340A1 (en) 2016-08-17 2018-02-22 The Regents Of The University Of California A novel immunoprobe-based method to assess organ injury status through a biofluid-based cell-free dna (cfdna) assay
CA3037190A1 (en) 2016-09-15 2018-03-22 ArcherDX, Inc. Methods of nucleic acid sample preparation for analysis of cell-free dna
US20200048711A1 (en) 2016-10-12 2020-02-13 Bellwether Bio, Inc Determining cell type origin of circulating cell-free dna with molecular counting
CA3040930A1 (en) 2016-11-07 2018-05-11 Grail, Inc. Methods of identifying somatic mutational signatures for early cancer detection
US20200024669A1 (en) 2017-03-20 2020-01-23 Caris Mpi, Inc. Genomic stability profiling
WO2018213498A1 (en) 2017-05-16 2018-11-22 Guardant Health, Inc. Identification of somatic or germline origin for cell-free dna
EP3752604B1 (en) 2018-03-16 2023-10-04 Gopath Laboratories LLC Methods for personalized detection of the recurrence of cancer or metastasis and/or evaluation of treatment response
US10801064B2 (en) 2018-05-31 2020-10-13 Personalis, Inc. Compositions, methods and systems for processing or analyzing multi-species nucleic acid samples

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20150057160A1 (en) * 2011-07-22 2015-02-26 Ucl Business Plc Pathogen screening
US20160019341A1 (en) * 2013-08-30 2016-01-21 Personalis, Inc. Methods and systems for genomic analysis

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
STEVANOVIC et al. Landscape of immunogenic tumor antigens in successful immunotherapy of virally induced epithelial cancer. Science, 14.April 2017, Vol. 356, No. 6334, pp. 200-205. Especially Abstract, pg 1, 2, 15, Fig S1 *

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