ES3050587T3 - Genomic information compression by configurable machine learning-based arithmetic coding - Google Patents

Genomic information compression by configurable machine learning-based arithmetic coding

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Publication number
ES3050587T3
ES3050587T3 ES21742062T ES21742062T ES3050587T3 ES 3050587 T3 ES3050587 T3 ES 3050587T3 ES 21742062 T ES21742062 T ES 21742062T ES 21742062 T ES21742062 T ES 21742062T ES 3050587 T3 ES3050587 T3 ES 3050587T3
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Spain
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context
encoding
data
type
training
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ES21742062T
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English (en)
Spanish (es)
Inventor
Shubham Chandak
Yee Cheung
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.)
Koninklijke Philips NV
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Koninklijke Philips NV
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Classifications

    • 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
    • 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
    • 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
    • G16B50/50—Compression of genetic data
    • H—ELECTRICITY
    • H03—ELECTRONIC CIRCUITRY
    • H03M—CODING; DECODING; CODE CONVERSION IN GENERAL
    • H03M7/00—Conversion of a code where information is represented by a given sequence or number of digits to a code where the same, similar or subset of information is represented by a different sequence or number of digits
    • H03M7/30—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction
    • H03M7/40—Conversion to or from variable length codes, e.g. Shannon-Fano code, Huffman code, Morse code
    • H03M7/4006—Conversion to or from arithmetic code
    • H—ELECTRICITY
    • H03—ELECTRONIC CIRCUITRY
    • H03M—CODING; DECODING; CODE CONVERSION IN GENERAL
    • H03M7/00—Conversion of a code where information is represented by a given sequence or number of digits to a code where the same, similar or subset of information is represented by a different sequence or number of digits
    • H03M7/30—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction
    • H03M7/60—General implementation details not specific to a particular type of compression
    • H03M7/6064—Selection of Compressor
    • H03M7/6076—Selection between compressors of the same type
    • H—ELECTRICITY
    • H03—ELECTRONIC CIRCUITRY
    • H03M—CODING; DECODING; CODE CONVERSION IN GENERAL
    • H03M7/00—Conversion of a code where information is represented by a given sequence or number of digits to a code where the same, similar or subset of information is represented by a different sequence or number of digits
    • H03M7/30—Compression; Expansion; Suppression of unnecessary data, e.g. redundancy reduction
    • H03M7/3068—Precoding preceding compression, e.g. Burrows-Wheeler transformation
    • H03M7/3079—Context modeling

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  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Medical Informatics (AREA)
  • Biophysics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Evolutionary Biology (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioethics (AREA)
  • Databases & Information Systems (AREA)
  • Genetics & Genomics (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Software Systems (AREA)
  • Public Health (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Data Mining & Analysis (AREA)
  • Artificial Intelligence (AREA)
  • Chemical & Material Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Compression, Expansion, Code Conversion, And Decoders (AREA)
  • Compression Or Coding Systems Of Tv Signals (AREA)
ES21742062T 2020-07-10 2021-06-30 Genomic information compression by configurable machine learning-based arithmetic coding Active ES3050587T3 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US202063050193P 2020-07-10 2020-07-10
PCT/EP2021/067960 WO2022008311A1 (en) 2020-07-10 2021-06-30 Genomic information compression by configurable machine learning-based arithmetic coding

Publications (1)

Publication Number Publication Date
ES3050587T3 true ES3050587T3 (en) 2025-12-22

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Family Applications (1)

Application Number Title Priority Date Filing Date
ES21742062T Active ES3050587T3 (en) 2020-07-10 2021-06-30 Genomic information compression by configurable machine learning-based arithmetic coding

Country Status (7)

Country Link
US (1) US20230253074A1 (https=)
EP (1) EP4179539B1 (https=)
JP (1) JP7826277B2 (https=)
CN (1) CN116018647A (https=)
ES (1) ES3050587T3 (https=)
PL (1) PL4179539T3 (https=)
WO (1) WO2022008311A1 (https=)

Families Citing this family (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113810155B (zh) * 2020-06-17 2022-11-18 华为技术有限公司 信道编译码方法和通信装置
US11818399B2 (en) * 2021-01-04 2023-11-14 Tencent America LLC Techniques for signaling neural network topology and parameters in the coded video stream
CN115391298B (zh) * 2021-05-25 2026-03-27 戴尔产品有限公司 基于内容的动态混合数据压缩
EP4465207A4 (en) * 2022-01-13 2025-10-15 Lg Electronics Inc METHOD BY WHICH A RECEIVING DEVICE PERFORMS END-TO-END LEARNING IN A WIRELESS COMMUNICATION SYSTEM, RECEIVING DEVICE, PROCESSING DEVICE, STORAGE MEDIUM, METHOD BY WHICH A TRANSMITTING DEVICE PERFORMS END-TO-END LEARNING, AND TRANSMITTING DEVICE
JP2025522817A (ja) * 2022-06-30 2025-07-17 華為技術有限公司 エントロピーコーディングパラメータの適応的選択
CN115083530B (zh) * 2022-08-22 2022-11-04 广州明领基因科技有限公司 基因测序数据压缩方法、装置、终端设备和存储介质
CN117692094B (zh) * 2022-09-02 2026-03-20 北京邮电大学 编码方法、解码方法、编码装置、解码装置及电子设备
CN116886104B (zh) * 2023-09-08 2023-11-21 西安小草植物科技有限责任公司 一种基于人工智能的智慧医疗数据分析方法

Family Cites Families (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP2002655A1 (de) * 2006-03-29 2008-12-17 Nokia Siemens Networks Gmbh & Co. Kg Verfahren und vorrichtung zum erstellen eines datenblocks für einen skalierbaren datenstrom
CN107529709B (zh) * 2011-06-16 2019-05-07 Ge视频压缩有限责任公司 解码器、编码器、解码和编码视频的方法及存储介质
CN106096327B (zh) * 2016-06-07 2018-08-17 广州麦仑信息科技有限公司 基于Torch监督式深度学习的基因性状识别方法
CN110663022B (zh) * 2016-10-11 2024-03-15 耶诺姆希斯股份公司 使用基因组描述符紧凑表示生物信息学数据的方法和设备
EP3583250B1 (en) * 2017-02-14 2023-07-12 Genomsys SA Method and systems for the efficient compression of genomic sequence reads
CN108306650A (zh) * 2018-01-16 2018-07-20 厦门极元科技有限公司 基因测序数据的压缩方法
PL4100954T3 (pl) * 2020-02-07 2026-01-26 Koninklijke Philips N.V. Ulepszona struktura kompresji wartości jakości w dopasowanych danych sekwencjonowania na podstawie nowych kontekstów

Also Published As

Publication number Publication date
US20230253074A1 (en) 2023-08-10
JP7826277B2 (ja) 2026-03-09
EP4179539C0 (en) 2025-10-01
EP4179539A1 (en) 2023-05-17
CN116018647A (zh) 2023-04-25
EP4179539B1 (en) 2025-10-01
JP2023535131A (ja) 2023-08-16
WO2022008311A1 (en) 2022-01-13
PL4179539T3 (pl) 2026-01-05

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