CA3149025A1 - Highly sensitive methods for accurate parallel quantification of nucleic acids - Google Patents

Highly sensitive methods for accurate parallel quantification of nucleic acids

Info

Publication number
CA3149025A1
CA3149025A1 CA3149025A CA3149025A CA3149025A1 CA 3149025 A1 CA3149025 A1 CA 3149025A1 CA 3149025 A CA3149025 A CA 3149025A CA 3149025 A CA3149025 A CA 3149025A CA 3149025 A1 CA3149025 A1 CA 3149025A1
Authority
CA
Canada
Prior art keywords
probe
sequence
bridge oligo
bridge
target
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.)
Pending
Application number
CA3149025A
Other languages
English (en)
French (fr)
Inventor
Juha-Pekka PURSIHEIMO
Tatu Hirvonen
Manu TAMMINEN
Anttoni Korkiakoski
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.)
Genomill Health Oy
Original Assignee
Genomill Health Oy
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 Genomill Health Oy filed Critical Genomill Health Oy
Publication of CA3149025A1 publication Critical patent/CA3149025A1/en
Pending legal-status Critical Current

Links

Classifications

    • 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
    • C12Q1/6869—Methods for 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
    • 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
    • C12Q1/6851—Quantitative amplification
    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • 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
    • 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
    • C12Q2545/00—Reactions characterised by their quantitative nature
    • C12Q2545/10—Reactions characterised by their quantitative nature the purpose being quantitative analysis

Landscapes

  • 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)
  • Analytical Chemistry (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Physics & Mathematics (AREA)
  • Genetics & Genomics (AREA)
  • Immunology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
CA3149025A 2021-03-18 2022-02-16 Highly sensitive methods for accurate parallel quantification of nucleic acids Pending CA3149025A1 (en)

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
EP21163300.3A EP4060050B1 (en) 2021-03-18 2021-03-18 Highly sensitive methods for accurate parallel quantification of nucleic acids
EP21163300.0 2021-03-18
EP22152617.1 2022-01-21
EP22152617.1A EP4060053A1 (en) 2021-03-18 2022-01-21 Highly sensitive methods for accurate parallel quantification of nucleic acids

Publications (1)

Publication Number Publication Date
CA3149025A1 true CA3149025A1 (en) 2022-09-18

Family

ID=75108125

Family Applications (1)

Application Number Title Priority Date Filing Date
CA3149025A Pending CA3149025A1 (en) 2021-03-18 2022-02-16 Highly sensitive methods for accurate parallel quantification of nucleic acids

Country Status (11)

Country Link
US (1) US11486003B2 (https=)
EP (2) EP4060050B1 (https=)
JP (2) JP7651497B2 (https=)
KR (1) KR20220130592A (https=)
CN (1) CN115109842A (https=)
CA (1) CA3149025A1 (https=)
DK (1) DK4060050T3 (https=)
ES (1) ES2942546T3 (https=)
FI (1) FI4060050T3 (https=)
PT (1) PT4060050T (https=)
TW (1) TWI864378B (https=)

Families Citing this family (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US12435364B2 (en) * 2021-08-16 2025-10-07 10X Genomics, Inc. Probes comprising a split barcode region and methods of use
US20240068010A1 (en) * 2022-08-31 2024-02-29 Genomill Health Oy Highly sensitive methods for accurate parallel quantification of variant nucleic acids
CN117512070B (zh) * 2022-10-14 2024-08-16 深圳赛陆医疗科技有限公司 在载体上生成探针的方法和样品中靶物质的检测方法
US20250146063A1 (en) * 2023-11-02 2025-05-08 Genomill Health Oy Method for high-throughput detection of target nucleotide sequences
EP4610367B1 (en) * 2024-03-01 2026-02-04 Genomill Health Oy Methods for accurate parallel amplification, detection and quantification of nucleic acids

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1985714B1 (en) * 1998-03-25 2012-02-29 Olink AB Method and kit for detecting a target molecule employing at least two affinity probes and rolling circle replication of padlock probes
US9856521B2 (en) * 2015-01-27 2018-01-02 BioSpyder Technologies, Inc. Ligation assays in liquid phase
GB2570412A (en) * 2016-08-31 2019-07-24 Harvard College Methods of generating libraries of nucleic acid sequences for detection via fluorescent in situ sequencing
GB201621514D0 (en) * 2016-12-16 2017-02-01 Q-Linea Ab Padlock probe detection method
WO2018175779A1 (en) * 2017-03-22 2018-09-27 The Board Of Trustees Of The Leland Stanford Junior University Molecular profiling using proximity ligation-in situ hybridization
EP3447152A1 (en) 2017-08-25 2019-02-27 Eawag, Swiss Federal Institute of Aquatic Science and Technology Accurate and massively parallel quantification of nucleic acid

Also Published As

Publication number Publication date
TW202305143A (zh) 2023-02-01
EP4060050B1 (en) 2023-02-15
PT4060050T (pt) 2023-05-02
EP4060050A1 (en) 2022-09-21
JP2025029149A (ja) 2025-03-05
FI4060050T3 (fi) 2023-05-04
TWI864378B (zh) 2024-12-01
CN115109842A (zh) 2022-09-27
DK4060050T3 (da) 2023-03-27
US20220298569A1 (en) 2022-09-22
KR20220130592A (ko) 2022-09-27
US11486003B2 (en) 2022-11-01
ES2942546T3 (es) 2023-06-02
JP7651497B2 (ja) 2025-03-26
JP2022145606A (ja) 2022-10-04
EP4060053A1 (en) 2022-09-21

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