JP7524215B2 - 抗体を分類するためのシステムおよび方法 - Google Patents

抗体を分類するためのシステムおよび方法 Download PDF

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JP7524215B2
JP7524215B2 JP2021559527A JP2021559527A JP7524215B2 JP 7524215 B2 JP7524215 B2 JP 7524215B2 JP 2021559527 A JP2021559527 A JP 2021559527A JP 2021559527 A JP2021559527 A JP 2021559527A JP 7524215 B2 JP7524215 B2 JP 7524215B2
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amino acid
antigen
sequences
variants
binding
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JP2022527381A5 (https=
JP2022527381A (ja
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デレク メイソン
サイモン フリーデンソーン
セドリック ウェーバー
サイ レディ
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Eidgenoessische Technische Hochschule Zurich ETHZ
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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
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N5/00—Computing arrangements using knowledge-based models
    • G06N5/02—Knowledge representation; Symbolic representation
    • G06N5/022—Knowledge engineering; Knowledge acquisition
    • 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
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/30—Detection of binding sites or motifs

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  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Theoretical Computer Science (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • General Health & Medical Sciences (AREA)
  • Evolutionary Biology (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biophysics (AREA)
  • Genetics & Genomics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Chemical & Material Sciences (AREA)
  • Data Mining & Analysis (AREA)
  • Artificial Intelligence (AREA)
  • Software Systems (AREA)
  • General Engineering & Computer Science (AREA)
  • Evolutionary Computation (AREA)
  • Epidemiology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
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  • Databases & Information Systems (AREA)
  • Computational Linguistics (AREA)
  • Computing Systems (AREA)
  • General Physics & Mathematics (AREA)
  • Mathematical Physics (AREA)
  • Peptides Or Proteins (AREA)
JP2021559527A 2019-04-09 2020-04-08 抗体を分類するためのシステムおよび方法 Active JP7524215B2 (ja)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US201962831663P 2019-04-09 2019-04-09
US62/831,663 2019-04-09
PCT/IB2020/053370 WO2020208555A1 (en) 2019-04-09 2020-04-08 Systems and methods to classify antibodies

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JP2022527381A JP2022527381A (ja) 2022-06-01
JP2022527381A5 JP2022527381A5 (https=) 2023-03-28
JP7524215B2 true JP7524215B2 (ja) 2024-07-29

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US (1) US20220157403A1 (https=)
EP (1) EP3953943A1 (https=)
JP (1) JP7524215B2 (https=)
CN (1) CN113853656A (https=)
AU (2) AU2020271361A1 (https=)
CA (1) CA3132189A1 (https=)
IL (1) IL287025A (https=)
WO (1) WO2020208555A1 (https=)

Families Citing this family (31)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US11049590B1 (en) 2020-02-12 2021-06-29 Peptilogics, Inc. Artificial intelligence engine architecture for generating candidate drugs
US11403316B2 (en) 2020-11-23 2022-08-02 Peptilogics, Inc. Generating enhanced graphical user interfaces for presentation of anti-infective design spaces for selecting drug candidates
US11512345B1 (en) 2021-05-07 2022-11-29 Peptilogics, Inc. Methods and apparatuses for generating peptides by synthesizing a portion of a design space to identify peptides having non-canonical amino acids
WO2022245737A1 (en) * 2021-05-17 2022-11-24 Genentech, Inc. Function guided in silico protein design
WO2022248935A1 (en) * 2021-05-27 2022-12-01 Lynceus Sas Machine learning-based quality control of a culture for bioproduction
US11567488B2 (en) * 2021-05-27 2023-01-31 Lynceus, Sas Machine learning-based quality control of a culture for bioproduction
WO2022271636A1 (en) * 2021-06-22 2022-12-29 Evqlv, Inc. Computational characterization and selection of sequence variants
WO2023036849A1 (en) * 2021-09-07 2023-03-16 ETH Zürich Identifying and predicting future coronavirus variants
WO2023049466A2 (en) * 2021-09-27 2023-03-30 Marwell Bio Inc. Machine learning for designing antibodies and nanobodies in-silico
IL312409A (en) * 2021-11-01 2024-06-01 Adimab Llc Systems and methods for intelligent construction of antibody libraries
US20230268026A1 (en) * 2022-01-07 2023-08-24 Absci Corporation Designing biomolecule sequence variants with pre-specified attributes
CN115116543B (zh) * 2022-04-18 2025-08-05 腾讯科技（深圳）有限公司 抗原抗体结合位点确定方法、装置、设备和存储介质
WO2023215322A1 (en) * 2022-05-02 2023-11-09 Merck Sharp & Dohme Llc Generative modeling leveraging deep learning for antibody affinity tuning
US12306862B2 (en) * 2022-05-13 2025-05-20 S&P Global Inc. Information extraction for unstructured text documents
CN115171774A (zh) * 2022-05-17 2022-10-11 慧壹科技(上海)有限公司 一种抗体/大分子药物的亲和力改造系统和方法
WO2023246834A1 (en) * 2022-06-24 2023-12-28 King Abdullah University Of Science And Technology Reinforcement learning (rl) for protein design
WO2024040020A1 (en) * 2022-08-15 2024-02-22 Absci Corporation Quantitative affinity activity specific cell enrichment
CN117672351A (zh) * 2022-09-01 2024-03-08 珠海碳云智能科技有限公司 一种评估抗体与多肽芯片结合特征的方法
WO2024051806A1 (zh) * 2022-09-09 2024-03-14 南京金斯瑞生物科技有限公司 一种设计人源化抗体序列的方法
EP4668279A4 (en) 2023-02-16 2026-03-25 Fujitsu Ltd INFORMATION PROCESSING PROGRAM, INFORMATION PROCESS, AND INFORMATION PROCESSING DEVICE
US12587274B2 (en) 2023-03-28 2026-03-24 Quantum Generative Materials Llc Satellite optimization management system based on natural language input and artificial intelligence
WO2024208261A1 (zh) * 2023-04-04 2024-10-10 南京金斯瑞生物科技有限公司 用于抗体药物开发的黏度预测方法
US12531162B1 (en) * 2023-05-31 2026-01-20 Northeastern University Multi-dimensional phenotypic space for genotype to phenotype mapping and intelligent design of cancer drug therapies using a deep learning net
WO2025070104A1 (ja) * 2023-09-28 2025-04-03 富士フイルム株式会社 情報処理装置、情報処理装置の作動方法、および情報処理装置の作動プログラム
CN117594114B (zh) * 2023-10-30 2024-12-03 康复大学(筹) 一种基于蛋白质结构域预测与生物大分子修饰结合的类抗体的方法
US12562256B2 (en) * 2023-11-07 2026-02-24 New York University Systems, methods and computer-accessible medium for identifying target pairs for CAR-T therapy
WO2025128525A1 (en) * 2023-12-11 2025-06-19 Research Development Foundation System and method for predicting microproteins
US12603701B2 (en) 2023-12-27 2026-04-14 Quantum Generative Materials Llc Distributed satellite constellation management and control system
US12368503B2 (en) 2023-12-27 2025-07-22 Quantum Generative Materials Llc Intent-based satellite transmit management based on preexisting historical location and machine learning
US20250279158A1 (en) * 2024-02-29 2025-09-04 Lurong Pan Computer-assisted method and system for evaluating and modifying immunogenicity of protein sequences using a protein large language model
WO2025235938A1 (en) * 2024-05-10 2025-11-13 Regeneron Pharmaceuticals, Inc. Computational methods and systems for predicting developability of protein sequences

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN109036580A (zh) 2018-07-06 2018-12-18 华东师范大学 基于相互作用能项和机器学习的蛋白-配体亲和力预测方法
US20190065677A1 (en) 2017-01-13 2019-02-28 Massachusetts Institute Of Technology Machine learning based antibody design

Family Cites Families (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2003099999A2 (en) * 2002-05-20 2003-12-04 Abmaxis, Inc. Generation and selection of protein library in silico
WO2014180490A1 (en) * 2013-05-10 2014-11-13 Biontech Ag Predicting immunogenicity of t cell epitopes
JP2019513415A (ja) 2016-04-04 2019-05-30 イーティーエッチ チューリッヒ タンパク質産生及びライブラリー生成のための哺乳類細胞株
GB201607521D0 (en) * 2016-04-29 2016-06-15 Oncolmmunity As Method

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20190065677A1 (en) 2017-01-13 2019-02-28 Massachusetts Institute Of Technology Machine learning based antibody design
CN109036580A (zh) 2018-07-06 2018-12-18 华东师范大学 基于相互作用能项和机器学习的蛋白-配体亲和力预测方法

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CN113853656A (zh) 2021-12-28
IL287025A (en) 2021-12-01
JP2022527381A (ja) 2022-06-01
EP3953943A1 (en) 2022-02-16
AU2020271361A1 (en) 2021-10-28
US20220157403A1 (en) 2022-05-19
WO2020208555A1 (en) 2020-10-15
CA3132189A1 (en) 2020-10-15
AU2025242082A1 (en) 2025-11-20

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