SI3914736T1 - Odkrivanje raka, izvornega tkiva raka in/ali vrste rakavih celic - Google Patents

Odkrivanje raka, izvornega tkiva raka in/ali vrste rakavih celic

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Publication number
SI3914736T1
SI3914736T1 SI202030392T SI202030392T SI3914736T1 SI 3914736 T1 SI3914736 T1 SI 3914736T1 SI 202030392 T SI202030392 T SI 202030392T SI 202030392 T SI202030392 T SI 202030392T SI 3914736 T1 SI3914736 T1 SI 3914736T1
Authority
SI
Slovenia
Prior art keywords
cancer
origin
cell type
detecting
tissue
Prior art date
Application number
SI202030392T
Other languages
English (en)
Inventor
Oliver Claude Venn
Alexander P. Fields
Samuel S. Gross
Qinwen Liu
Jan Schellenberger
Joerg Bredno
John F. Beausang
Seyedmehdi Shojaee
Onur Sakarya
M. Cyrus MAHER
Arash Jamshidi
Original Assignee
Grail, Llc
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 Grail, Llc filed Critical Grail, Llc
Publication of SI3914736T1 publication Critical patent/SI3914736T1/sl

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    • 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
    • C12Q1/6876Nucleic 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
    • C12Q1/6886Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for diseases caused by alterations of genetic material for cancer
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61KPREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K45/00Medicinal preparations containing active ingredients not provided for in groups A61K31/00 - A61K41/00
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00Antineoplastic agents
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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
    • C12Q1/6809Methods for determination or identification of nucleic acids involving differential detection
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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
    • C12Q1/6813Hybridisation assays
    • C12Q1/6832Enhancement of hybridisation reaction
    • 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
    • C12Q1/6869Methods for sequencing
    • C12Q1/6874Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation
    • 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
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • 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
    • G16B40/00ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/20Supervised data analysis
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    • C12Q2523/00Reactions characterised by treatment of reaction samples
    • C12Q2523/10Characterised by chemical treatment
    • C12Q2523/125Bisulfite(s)
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    • C12Q2525/00Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10Modifications characterised by
    • C12Q2525/204Modifications characterised by specific length of the oligonucleotides
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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    • C12Q2535/00Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
    • C12Q2535/122Massive parallel sequencing
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/112Disease subtyping, staging or classification
    • 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
    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/154Methylation markers

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  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Physics & Mathematics (AREA)
  • Analytical Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Immunology (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • General Engineering & Computer Science (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Pathology (AREA)
  • Medical Informatics (AREA)
  • Oncology (AREA)
  • Hospice & Palliative Care (AREA)
  • Public Health (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Data Mining & Analysis (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Epidemiology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Databases & Information Systems (AREA)
  • Software Systems (AREA)
  • Evolutionary Computation (AREA)
  • Bioethics (AREA)
  • Artificial Intelligence (AREA)
  • Medicinal Chemistry (AREA)
  • Pharmacology & Pharmacy (AREA)
SI202030392T 2019-01-25 2020-01-24 Odkrivanje raka, izvornega tkiva raka in/ali vrste rakavih celic SI3914736T1 (sl)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201962797176P 2019-01-25 2019-01-25
US201962797170P 2019-01-25 2019-01-25
US201962797174P 2019-01-25 2019-01-25
EP20710332.6A EP3914736B1 (en) 2019-01-25 2020-01-24 Detecting cancer, cancer tissue of origin, and/or a cancer cell type
PCT/US2020/015082 WO2020154682A2 (en) 2019-01-25 2020-01-24 Detecting cancer, cancer tissue of origin, and/or a cancer cell type

Publications (1)

Publication Number Publication Date
SI3914736T1 true SI3914736T1 (sl) 2024-05-31

Family

ID=69780286

Family Applications (1)

Application Number Title Priority Date Filing Date
SI202030392T SI3914736T1 (sl) 2019-01-25 2020-01-24 Odkrivanje raka, izvornega tkiva raka in/ali vrste rakavih celic

Country Status (14)

Country Link
US (2) US20220119890A1 (sl)
EP (2) EP3914736B1 (sl)
CN (1) CN113728115A (sl)
AU (1) AU2020212057A1 (sl)
CA (1) CA3127762A1 (sl)
DK (1) DK3914736T3 (sl)
ES (1) ES2974178T3 (sl)
FI (1) FI3914736T3 (sl)
IL (1) IL285126A (sl)
LT (1) LT3914736T (sl)
PL (1) PL3914736T3 (sl)
PT (1) PT3914736T (sl)
SI (1) SI3914736T1 (sl)
WO (1) WO2020154682A2 (sl)

Families Citing this family (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DE202019005627U1 (de) 2018-04-02 2021-05-31 Grail, Inc. Methylierungsmarker und gezielte Methylierungssondenpanels
CN113286881A (zh) 2018-09-27 2021-08-20 格里尔公司 甲基化标记和标靶甲基化探针板
EP3921445A4 (en) * 2019-02-05 2022-10-26 Grail, LLC DETECTION OF CANCER, ORIGIN CANCER TISSUE, AND/OR A CANCER CELL TYPE
EP3973080A4 (en) 2019-05-22 2023-05-31 Grail, LLC SYSTEMS AND METHODS FOR DETERMINING IF AN INDIVIDUAL HAS DISEASE OF CANCER USING TRANSFER LEARNING
EP4055187A4 (en) 2019-11-06 2023-11-01 The Board of Trustees of the Leland Stanford Junior University METHOD AND SYSTEMS FOR ANALYZING NUCLEIC ACID MOLECULES
CA3159651A1 (en) 2019-12-18 2021-06-24 Jing Xiang Systems and methods for estimating cell source fractions using methylation information
CA3167633A1 (en) 2020-02-28 2021-09-02 Pranav Parmjit SINGH Systems and methods for calling variants using methylation sequencing data
CA3169488A1 (en) 2020-02-28 2021-09-02 Collin MELTON Identifying methylation patterns that discriminate or indicate a cancer condition
EP4115427A1 (en) 2020-03-04 2023-01-11 Grail, LLC Systems and methods for cancer condition determination using autoencoders
CA3207988A1 (en) * 2021-04-06 2022-10-13 Oliver Claude VENN Conditional tissue of origin return for localization accuracy
CN117858954A (zh) * 2021-04-21 2024-04-09 赫利奥健康公司 细胞异质性调整的克隆甲基化(chalm):甲基化定量方法
US11783912B2 (en) 2021-05-05 2023-10-10 The Board Of Trustees Of The Leland Stanford Junior University Methods and systems for analyzing nucleic acid molecules
AU2022325153A1 (en) 2021-08-05 2024-02-15 Grail, Llc Somatic variant cooccurrence with abnormally methylated fragments
EP4299764A1 (en) * 2022-06-28 2024-01-03 Universal Diagnostics, S.A. Methods for detecting pancreatic cancer using dna methylation markers
WO2024086226A1 (en) * 2022-10-19 2024-04-25 Grail, Llc Component mixture model for tissue identification in dna samples

Family Cites Families (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2010037001A2 (en) 2008-09-26 2010-04-01 Immune Disease Institute, Inc. Selective oxidation of 5-methylcytosine by tet-family proteins
WO2011127136A1 (en) 2010-04-06 2011-10-13 University Of Chicago Composition and methods related to modification of 5-hydroxymethylcytosine (5-hmc)
US20150259743A1 (en) * 2013-12-31 2015-09-17 Roche Nimblegen, Inc. Methods of assessing epigenetic regulation of genome function via dna methylation status and systems and kits therefor
CA2938451C (en) 2014-01-30 2023-10-17 The Regents Of The University Of California Methylation haplotyping for non-invasive diagnosis (monod)
WO2015153284A1 (en) * 2014-03-31 2015-10-08 Mayo Foundation For Medical Education And Research Detecting colorectal neoplasm
WO2018119452A2 (en) * 2016-12-22 2018-06-28 Guardant Health, Inc. Methods and systems for analyzing nucleic acid molecules
EP3589371A4 (en) * 2017-03-02 2020-11-25 Youhealth Oncotech, Limited METHYLATION MARKERS FOR THE DIAGNOSIS OF HEPER CELL CARCINOMA AND LUNG CANCER
CA3092998A1 (en) 2018-03-13 2019-09-19 Grail, Inc. Anomalous fragment detection and classification

Also Published As

Publication number Publication date
EP4353834A3 (en) 2024-05-01
DK3914736T3 (da) 2024-03-25
EP3914736B1 (en) 2023-12-20
LT3914736T (lt) 2024-06-10
US20220119890A1 (en) 2022-04-21
EP4353834A2 (en) 2024-04-17
IL285126A (en) 2021-09-30
WO2020154682A2 (en) 2020-07-30
WO2020154682A3 (en) 2020-10-01
FI3914736T3 (fi) 2024-03-19
ES2974178T3 (es) 2024-06-26
PT3914736T (pt) 2024-03-27
CN113728115A (zh) 2021-11-30
CA3127762A1 (en) 2020-07-30
EP3914736A2 (en) 2021-12-01
US20220090207A1 (en) 2022-03-24
AU2020212057A1 (en) 2021-08-26
PL3914736T3 (pl) 2024-06-17

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