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1. WO2017177308 - HYBRID-CAPTURE SEQUENCING FOR DETERMINING IMMUNE CELL CLONALITY

Publication Number WO/2017/177308
Publication Date 19.10.2017
International Application No. PCT/CA2017/000084
International Filing Date 13.04.2017
IPC
C40B 40/06 2006.01
CCHEMISTRY; METALLURGY
40COMBINATORIAL TECHNOLOGY
BCOMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES, IN SILICO LIBRARIES
40Libraries per se, e.g. arrays, mixtures
04Libraries containing only organic compounds
06Libraries containing nucleotides or polynucleotides, or derivatives thereof
C12N 15/10 2006.01
CCHEMISTRY; METALLURGY
12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
15Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
09Recombinant DNA-technology
10Processes for the isolation, preparation or purification of DNA or RNA
C12N 15/12 2006.01
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12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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15Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
09Recombinant DNA-technology
11DNA or RNA fragments; Modified forms thereof
12Genes encoding animal proteins
C12N 15/13 2006.01
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15Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
09Recombinant DNA-technology
11DNA or RNA fragments; Modified forms thereof
12Genes encoding animal proteins
13Immunoglobulins
C12Q 1/68 2006.01
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12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
QMEASURING 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
1Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
68involving nucleic acids
C40B 30/04 2006.01
CCHEMISTRY; METALLURGY
40COMBINATORIAL TECHNOLOGY
BCOMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES, IN SILICO LIBRARIES
30Methods of screening libraries
04by measuring the ability to specifically bind a target molecule, e.g. antibody-antigen binding, receptor-ligand binding
CPC
C12Q 1/6837
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QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS
1Measuring or testing processes involving enzymes, nucleic acids or microorganisms
68involving nucleic acids
6813Hybridisation assays
6834Enzymatic or biochemical coupling of nucleic acids to a solid phase
6837using probe arrays or probe chips
C12Q 1/6855
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1Measuring or testing processes involving enzymes, nucleic acids or microorganisms
68involving nucleic acids
6844Nucleic acid amplification reactions
6853using modified primers or templates
6855Ligating adaptors
C12Q 1/6869
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1Measuring or testing processes involving enzymes, nucleic acids or microorganisms
68involving nucleic acids
6869Methods for sequencing
C12Q 1/6881
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1Measuring or testing processes involving enzymes, nucleic acids or microorganisms
68involving nucleic acids
6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
6881for tissue or cell typing, e.g. human leukocyte antigen [HLA] probes
C12Q 2525/191
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2525Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
10Modifications characterised by
191incorporating an adaptor
C12Q 2535/122
CCHEMISTRY; METALLURGY
12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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2535Reactions characterised by the assay type for determining the identity of a nucleotide base or a sequence of oligonucleotides
122Massive parallel sequencing
Applicants
  • UNIVERSITY HEALTH NETWORK (UHN) [CA]/[CA]
Inventors
  • PUGH, Trevor John
  • MULDER, David Thomas
  • MAHE, Etienne Raymond G. A.
Agents
  • CHIU, Jung-Kay
Priority Data
62/322,99915.04.2016US
Publication Language English (EN)
Filing Language English (EN)
Designated States
Title
(EN) HYBRID-CAPTURE SEQUENCING FOR DETERMINING IMMUNE CELL CLONALITY
(FR) SÉQUENÇAGE DE CAPTURE HYBRIDE POUR DÉTERMINER LA CLONALITÉ DE CELLULES IMMUNITAIRES
Abstract
(EN)
In an aspect, there is provided, a method of capturing a population of T-Cell receptor and/or immunoglobulin sequences with variable regions within a patient sample, said method comprising: extracting/preparing DNA fragments from the patient sample; ligating a nucleic acid adapter to the DNA fragments, the nucleic acid adapter suitable for recognition by a pre-selected nucleic acid probe; capturing DNA fragments existing in the patient sample using a collection of nucleic acid hybrid capture probes, wherein each capture probe is designed to hybridize to a known V gene segment and/or a J gene segment within the T cell receptor and/or immunoglobulin genomic loci.
(FR)
Sous un aspect, cette invention concerne un procédé de capture d'une population de séquences d'un récepteur de lymphocytes T et/ou d'une immunoglobuline avec des régions variables dans un échantillon provenant d'un patient, ledit procédé comprenant : l'extraction/la préparation de fragments d'ADN à partir de l'échantillon du patient ; la ligature d'un adaptateur d'acide nucléique aux fragments d'ADN, l'adaptateur d'acide nucléique se prêtant à reconnaissance par une sonde d'acide nucléique présélectionnée ; la capture de fragments d'ADN existant dans l'échantillon du patient à l'aide d'un ensemble de sondes de capture hybrides d'acide nucléique, chaque sonde de capture étant conçue pour s'hybrider à un segment de gène V connu et/ou à un segment de gène J à l'intérieur des loci génomiques du récepteur de lymphocyte T et/ou de l'immunoglobuline.
Also published as
Latest bibliographic data on file with the International Bureau