CA3076159C - Analyzing tumor dna in a cell-free sample - Google Patents

Analyzing tumor dna in a cell-free sample Download PDF

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Publication number
CA3076159C
CA3076159C CA3076159A CA3076159A CA3076159C CA 3076159 C CA3076159 C CA 3076159C CA 3076159 A CA3076159 A CA 3076159A CA 3076159 A CA3076159 A CA 3076159A CA 3076159 C CA3076159 C CA 3076159C
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Prior art keywords
nucleic acid
dna
chromosome
acid sequence
allele
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English (en)
French (fr)
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CA3076159A1 (en
Inventor
Yuk Ming Dennis Lo
Rossa Wai Kwun Chiu
Kwan Chee Chan
Ka Chun Chong
Benny Chung Ying Zee
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Chinese University of Hong Kong CUHK
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Chinese University of Hong Kong CUHK
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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809Methods for determination or identification of nucleic acids involving differential detection
    • CCHEMISTRY; METALLURGY
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
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    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813Hybridisation assays
    • C12Q1/6827Hybridisation assays for detection of mutation or polymorphism
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6869Methods for sequencing
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6883Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material
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    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/10Ploidy or copy number detection
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/20Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
    • GPHYSICS
    • G16INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00ICT specially adapted for sequence analysis involving nucleotides or amino acids
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    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/112Disease subtyping, staging or classification
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    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/154Methylation markers
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    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/156Polymorphic or mutational markers
    • GPHYSICS
    • G01MEASURING; TESTING
    • G01NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2800/00Detection or diagnosis of diseases
    • G01N2800/38Pediatrics
    • G01N2800/385Congenital anomalies
    • G01N2800/387Down syndrome; Trisomy 18; Trisomy 13
    • YGENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02ATECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
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  • Bioinformatics & Cheminformatics (AREA)
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  • Microbiology (AREA)
  • General Engineering & Computer Science (AREA)
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  • Theoretical Computer Science (AREA)
  • Medical Informatics (AREA)
  • Evolutionary Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Pathology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Saccharide Compounds (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Pharmaceuticals Containing Other Organic And Inorganic Compounds (AREA)
CA3076159A 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample Active CA3076159C (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US95143807P 2007-07-23 2007-07-23
US60/951,438 2007-07-23
CA3029497A CA3029497C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance

Related Parent Applications (1)

Application Number Title Priority Date Filing Date
CA3029497A Division CA3029497C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance

Publications (2)

Publication Number Publication Date
CA3076159A1 CA3076159A1 (en) 2009-01-29
CA3076159C true CA3076159C (en) 2022-05-24

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ID=39798126

Family Applications (10)

Application Number Title Priority Date Filing Date
CA3127930A Pending CA3127930A1 (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing
CA3076159A Active CA3076159C (en) 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample
CA3176319A Pending CA3176319A1 (en) 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample
CA2694007A Active CA2694007C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA3029497A Active CA3029497C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA3200589A Pending CA3200589A1 (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA2900927A Active CA2900927C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing
CA3076142A Active CA3076142C (en) 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample
CA2693081A Active CA2693081C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing
CA3009992A Active CA3009992C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing

Family Applications Before (1)

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CA3127930A Pending CA3127930A1 (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing

Family Applications After (8)

Application Number Title Priority Date Filing Date
CA3176319A Pending CA3176319A1 (en) 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample
CA2694007A Active CA2694007C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA3029497A Active CA3029497C (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA3200589A Pending CA3200589A1 (en) 2007-07-23 2008-07-23 Determining a nucleic acid sequence imbalance
CA2900927A Active CA2900927C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing
CA3076142A Active CA3076142C (en) 2007-07-23 2008-07-23 Analyzing tumor dna in a cell-free sample
CA2693081A Active CA2693081C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing
CA3009992A Active CA3009992C (en) 2007-07-23 2008-07-23 Diagnosing fetal chromosomal aneuploidy using genomic sequencing

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US (12) US12054776B2 (enExample)
EP (15) EP3656870A1 (enExample)
JP (17) JP5519500B2 (enExample)
KR (24) KR102561664B1 (enExample)
CN (11) CN103849684A (enExample)
AU (1) AU2008278839B2 (enExample)
BR (1) BRPI0814670B8 (enExample)
CA (10) CA3127930A1 (enExample)
CY (3) CY1114773T1 (enExample)
DK (6) DK2527471T3 (enExample)
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LT (2) LT2557520T (enExample)
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NZ (2) NZ582702A (enExample)
PL (4) PL2557520T3 (enExample)
PT (3) PT2183693E (enExample)
SG (1) SG183062A1 (enExample)
SI (4) SI2183693T2 (enExample)
WO (2) WO2009013496A1 (enExample)
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