CN117545855A - 使用电信号的碱基修饰分析 - Google Patents

使用电信号的碱基修饰分析 Download PDF

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Publication number
CN117545855A
CN117545855A CN202280037190.7A CN202280037190A CN117545855A CN 117545855 A CN117545855 A CN 117545855A CN 202280037190 A CN202280037190 A CN 202280037190A CN 117545855 A CN117545855 A CN 117545855A
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China
Prior art keywords
nucleic acid
nucleotide
acid molecule
methylation
nucleotides
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Pending
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CN202280037190.7A
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English (en)
Chinese (zh)
Inventor
卢煜明
赵慧君
陈君赐
江培勇
郑淑恒
邓佳恩
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Chinese University of Hong Kong CUHK
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Chinese University of Hong Kong CUHK
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Publication date
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Publication of CN117545855A publication Critical patent/CN117545855A/zh
Pending legal-status Critical Current

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    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/20—Supervised data analysis
    • 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
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • 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
    • C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
    • C12Q2563/116—Nucleic acid detection characterized by the use of physical, structural and functional properties electrical properties of nucleic acids, e.g. impedance, conductivity or resistance
    • 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
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/154—Methylation markers
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/10—Ploidy or copy number detection
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR

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  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Evolutionary Biology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Chemical & Material Sciences (AREA)
  • Data Mining & Analysis (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Databases & Information Systems (AREA)
  • Artificial Intelligence (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Bioethics (AREA)
  • Software Systems (AREA)
  • Molecular Biology (AREA)
  • Genetics & Genomics (AREA)
  • Organic Chemistry (AREA)
  • Signal Processing (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating Or Analyzing Materials By The Use Of Electric Means (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
CN202280037190.7A 2021-04-12 2022-04-12 使用电信号的碱基修饰分析 Pending CN117545855A (zh)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US202163173728P 2021-04-12 2021-04-12
US63/173,728 2021-04-12
PCT/CN2022/086260 WO2022218290A1 (en) 2021-04-12 2022-04-12 Base modification analysis using electrical signals

Publications (1)

Publication Number Publication Date
CN117545855A true CN117545855A (zh) 2024-02-09

Family

ID=83509521

Family Applications (1)

Application Number Title Priority Date Filing Date
CN202280037190.7A Pending CN117545855A (zh) 2021-04-12 2022-04-12 使用电信号的碱基修饰分析

Country Status (10)

Country Link
US (1) US20220328135A1 (https=)
EP (1) EP4323539A4 (https=)
JP (1) JP2024516365A (https=)
KR (1) KR20240007159A (https=)
CN (1) CN117545855A (https=)
AU (1) AU2022258155A1 (https=)
CA (1) CA3215066A1 (https=)
IL (1) IL307398A (https=)
TW (1) TW202305818A (https=)
WO (1) WO2022218290A1 (https=)

Families Citing this family (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN112481363B (zh) * 2020-03-09 2024-05-28 南京大学 突变Aerolysin单体在检测RNA碱基序列及RNA修饰方面的应用
CN115620809B (zh) * 2022-12-16 2023-04-07 北京齐碳科技有限公司 纳米孔测序数据分析方法、装置以及存储介质和应用
US20240203530A1 (en) * 2022-12-16 2024-06-20 Centre For Novostics Machine learning techniques to determine base methylations
JPWO2024247764A1 (https=) * 2023-05-30 2024-12-05
CN117831630B (zh) * 2024-03-05 2024-05-17 北京普译生物科技有限公司 为碱基识别模型构建训练数据集的方法、装置及电子设备

Family Cites Families (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2002318336A1 (en) * 2001-06-08 2002-12-23 U.S. Genomics, Inc. Methods and products for analyzing nucleic acids based on methylation status
WO2008047234A1 (en) * 2006-10-18 2008-04-24 Epigenomics Ag A molecule for providing a standard for the quantitative analysis of the methylation status of a nucleic acid
WO2008070144A2 (en) * 2006-12-06 2008-06-12 Duke University Imprinted genes and disease
US9238836B2 (en) * 2012-03-30 2016-01-19 Pacific Biosciences Of California, Inc. Methods and compositions for sequencing modified nucleic acids
CA2995422A1 (en) * 2015-08-12 2017-02-16 The Chinese University Of Hong Kong Single-molecule sequencing of plasma dna
GB201819378D0 (en) * 2018-11-28 2019-01-09 Oxford Nanopore Tech Ltd Analysis of nanopore signal using a machine-learning technique
WO2020236995A1 (en) * 2019-05-22 2020-11-26 Icahn School Of Medicine At Mount Sinai Method for de novo detection, identification and fine mapping of multiple forms of nucleic acid modifications
TWI752593B (zh) * 2019-08-16 2022-01-11 香港中文大學 核酸鹼基修飾的測定

Also Published As

Publication number Publication date
TW202305818A (zh) 2023-02-01
IL307398A (en) 2023-12-01
EP4323539A4 (en) 2025-02-05
KR20240007159A (ko) 2024-01-16
EP4323539A1 (en) 2024-02-21
JP2024516365A (ja) 2024-04-15
US20220328135A1 (en) 2022-10-13
AU2022258155A1 (en) 2023-11-30
CA3215066A1 (en) 2022-10-20
WO2022218290A1 (en) 2022-10-20

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