CN104919466A - 数据库驱动的原始测序数据的初步分析 - Google Patents

数据库驱动的原始测序数据的初步分析 Download PDF

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CN104919466A
CN104919466A CN201380065692.1A CN201380065692A CN104919466A CN 104919466 A CN104919466 A CN 104919466A CN 201380065692 A CN201380065692 A CN 201380065692A CN 104919466 A CN104919466 A CN 104919466A
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sequence
database
sequences
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L·戈蒂埃
O·伦德
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Danmarks Tekniske Universitet
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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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • 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
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/20—Sequence assembly
    • 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
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • 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
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • G16B50/30—Data warehousing; Computing architectures

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  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Health & Medical Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Biophysics (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Databases & Information Systems (AREA)
  • Bioethics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
CN201380065692.1A 2012-10-15 2013-10-11 数据库驱动的原始测序数据的初步分析 Pending CN104919466A (zh)

Applications Claiming Priority (3)

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EP12188538 2012-10-15
EP12188538.8 2012-10-15
PCT/EP2013/071280 WO2014060305A1 (en) 2012-10-15 2013-10-11 Database-driven primary analysis of raw sequencing data

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CN104919466A true CN104919466A (zh) 2015-09-16

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US (1) US20150294065A1 (enExample)
EP (1) EP2915084A1 (enExample)
JP (1) JP2016502162A (enExample)
CN (1) CN104919466A (enExample)
WO (1) WO2014060305A1 (enExample)

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CN107683477A (zh) * 2015-06-05 2018-02-09 利姆博思医学科技有限责任公司 数据质量管理系统和方法
CN108699601A (zh) * 2016-02-11 2018-10-23 斯坦福大学托管董事会 第三代测序比对算法
CN111128303A (zh) * 2018-10-31 2020-05-08 深圳华大生命科学研究院 基于已知序列确定目标物种中对应序列的方法和系统
WO2021196358A1 (zh) * 2020-04-02 2021-10-07 上海之江生物科技股份有限公司 微生物目标片段中特异性区域的识别方法、装置及应用
CN113744806A (zh) * 2021-06-23 2021-12-03 杭州圣庭医疗科技有限公司 一种基于纳米孔测序仪的真菌测序数据鉴定方法
CN118051654A (zh) * 2024-04-15 2024-05-17 北京嘉和海森健康科技有限公司 一种数据分析方法、装置、电子设备和可读存储介质

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US10691775B2 (en) 2013-01-17 2020-06-23 Edico Genome, Corp. Bioinformatics systems, apparatuses, and methods executed on an integrated circuit processing platform
US10847251B2 (en) 2013-01-17 2020-11-24 Illumina, Inc. Genomic infrastructure for on-site or cloud-based DNA and RNA processing and analysis
WO2014113736A1 (en) 2013-01-17 2014-07-24 Edico Genome Corp. Bioinformatics systems, apparatuses, and methods executed on an integrated circuit processing platform
US10068054B2 (en) 2013-01-17 2018-09-04 Edico Genome, Corp. Bioinformatics systems, apparatuses, and methods executed on an integrated circuit processing platform
AU2014324729B2 (en) 2013-09-26 2019-08-22 Five3 Genomics, Llc Systems, methods, and compositions for viral-associated tumors
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US9697327B2 (en) 2014-02-24 2017-07-04 Edico Genome Corporation Dynamic genome reference generation for improved NGS accuracy and reproducibility
US9618474B2 (en) 2014-12-18 2017-04-11 Edico Genome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
US10006910B2 (en) 2014-12-18 2018-06-26 Agilome, Inc. Chemically-sensitive field effect transistors, systems, and methods for manufacturing and using the same
US9859394B2 (en) 2014-12-18 2018-01-02 Agilome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
WO2016100049A1 (en) 2014-12-18 2016-06-23 Edico Genome Corporation Chemically-sensitive field effect transistor
US10020300B2 (en) 2014-12-18 2018-07-10 Agilome, Inc. Graphene FET devices, systems, and methods of using the same for sequencing nucleic acids
US9857328B2 (en) 2014-12-18 2018-01-02 Agilome, Inc. Chemically-sensitive field effect transistors, systems and methods for manufacturing and using the same
WO2016103148A1 (en) * 2014-12-23 2016-06-30 Koninklijke Philips N.V. Systems, methods, and apparatuses for sequence alignment
WO2016154154A2 (en) 2015-03-23 2016-09-29 Edico Genome Corporation Method and system for genomic visualization
AU2016253004B2 (en) * 2015-04-24 2022-10-06 University Of Utah Research Foundation Methods and systems for multiple taxonomic classification
US11194778B2 (en) * 2015-12-18 2021-12-07 International Business Machines Corporation Method and system for hybrid sort and hash-based query execution
US10068183B1 (en) 2017-02-23 2018-09-04 Edico Genome, Corp. Bioinformatics systems, apparatuses, and methods executed on a quantum processing platform
US20170270245A1 (en) 2016-01-11 2017-09-21 Edico Genome, Corp. Bioinformatics systems, apparatuses, and methods for performing secondary and/or tertiary processing
WO2017201081A1 (en) 2016-05-16 2017-11-23 Agilome, Inc. Graphene fet devices, systems, and methods of using the same for sequencing nucleic acids
US10246704B1 (en) 2017-12-29 2019-04-02 Clear Labs, Inc. Detection of microorganisms in food samples and food processing facilities
US10597714B2 (en) 2017-12-29 2020-03-24 Clear Labs, Inc. Automated priming and library loading device
EP3731959B1 (en) 2017-12-29 2025-10-08 Clear Labs, Inc. Automated priming and library loading device
US11314781B2 (en) 2018-09-28 2022-04-26 International Business Machines Corporation Construction of reference database accurately representing complete set of data items for faster and tractable classification usage
US11830580B2 (en) 2018-09-30 2023-11-28 International Business Machines Corporation K-mer database for organism identification
US11347810B2 (en) 2018-12-20 2022-05-31 International Business Machines Corporation Methods of automatically and self-consistently correcting genome databases
US11515011B2 (en) * 2019-08-09 2022-11-29 International Business Machines Corporation K-mer based genomic reference data compression
KR20230009877A (ko) * 2020-05-08 2023-01-17 일루미나, 인코포레이티드 게놈 서열분석 및 검출 기술
JP2023541090A (ja) * 2020-09-15 2023-09-28 イルミナ インコーポレイテッド ソフトウェアで加速されたゲノムリードマッピング
JP2025512716A (ja) 2022-03-08 2025-04-22 イルミナ インコーポレイテッド マルチパスソフトウェアで加速されたゲノムリードマッピングエンジン
CN120432002A (zh) * 2025-07-08 2025-08-05 四川国际旅行卫生保健中心(成都海关口岸门诊部) 一种输入性传染病快速测序与溯源分析系统

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Cited By (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN107683477A (zh) * 2015-06-05 2018-02-09 利姆博思医学科技有限责任公司 数据质量管理系统和方法
CN108699601A (zh) * 2016-02-11 2018-10-23 斯坦福大学托管董事会 第三代测序比对算法
CN111128303A (zh) * 2018-10-31 2020-05-08 深圳华大生命科学研究院 基于已知序列确定目标物种中对应序列的方法和系统
CN111128303B (zh) * 2018-10-31 2023-09-15 深圳华大生命科学研究院 基于已知序列确定目标物种中对应序列的方法和系统
WO2021196358A1 (zh) * 2020-04-02 2021-10-07 上海之江生物科技股份有限公司 微生物目标片段中特异性区域的识别方法、装置及应用
US12308093B2 (en) 2020-04-02 2025-05-20 Shanghai Zj Bio-Tech Co., Ltd Method and device for identifying specific region in microorganism target fragment and use thereof
CN113744806A (zh) * 2021-06-23 2021-12-03 杭州圣庭医疗科技有限公司 一种基于纳米孔测序仪的真菌测序数据鉴定方法
CN113744806B (zh) * 2021-06-23 2024-03-12 杭州圣庭医疗科技有限公司 一种基于纳米孔测序仪的真菌测序数据鉴定方法
CN118051654A (zh) * 2024-04-15 2024-05-17 北京嘉和海森健康科技有限公司 一种数据分析方法、装置、电子设备和可读存储介质

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EP2915084A1 (en) 2015-09-09
US20150294065A1 (en) 2015-10-15
JP2016502162A (ja) 2016-01-21

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Application publication date: 20150916