EP1514216A4 - GENERATION AND SELECTION OF A PROTEIN LIBRARY IN SILICO - Google Patents

GENERATION AND SELECTION OF A PROTEIN LIBRARY IN SILICO

Info

Publication number
EP1514216A4
EP1514216A4 EP03755415A EP03755415A EP1514216A4 EP 1514216 A4 EP1514216 A4 EP 1514216A4 EP 03755415 A EP03755415 A EP 03755415A EP 03755415 A EP03755415 A EP 03755415A EP 1514216 A4 EP1514216 A4 EP 1514216A4
Authority
EP
European Patent Office
Prior art keywords
silico
selection
generation
protein library
library
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.)
Withdrawn
Application number
EP03755415A
Other languages
German (de)
English (en)
French (fr)
Other versions
EP1514216A2 (en
Inventor
Peizhi Luo
Mark Hsieh
Pingyu Zhong
Caili Wang
Yicheng Cao
Shengjiang Liu
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.)
Abmaxis Inc
Original Assignee
Abmaxis Inc
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
Priority claimed from US10/153,176 external-priority patent/US20030022240A1/en
Priority claimed from US10/153,159 external-priority patent/US7117096B2/en
Application filed by Abmaxis Inc filed Critical Abmaxis Inc
Publication of EP1514216A2 publication Critical patent/EP1514216A2/en
Publication of EP1514216A4 publication Critical patent/EP1514216A4/en
Withdrawn legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/22—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against growth factors ; against growth regulators
    • 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
    • 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
    • G16B35/00—ICT specially adapted for in silico combinatorial libraries of nucleic acids, proteins or peptides
    • 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
    • G16B35/00—ICT specially adapted for in silico combinatorial libraries of nucleic acids, proteins or peptides
    • G16B35/20—Screening of libraries
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16C—COMPUTATIONAL CHEMISTRY; CHEMOINFORMATICS; COMPUTATIONAL MATERIALS SCIENCE
    • G16C20/00—Chemoinformatics, i.e. ICT specially adapted for the handling of physicochemical or structural data of chemical particles, elements, compounds or mixtures
    • G16C20/60—In silico combinatorial chemistry
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/24—Immunoglobulins specific features characterized by taxonomic origin containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/60—Immunoglobulins specific features characterized by non-natural combinations of immunoglobulin fragments
    • C07K2317/62—Immunoglobulins specific features characterized by non-natural combinations of immunoglobulin fragments comprising only variable region components
    • C07K2317/622—Single chain antibody (scFv)
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2319/00—Fusion polypeptide
    • 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
    • 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
    • G16B20/50—Mutagenesis

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biophysics (AREA)
  • Theoretical Computer Science (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • Library & Information Science (AREA)
  • Genetics & Genomics (AREA)
  • Organic Chemistry (AREA)
  • Medicinal Chemistry (AREA)
  • Immunology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Computing Systems (AREA)
  • Peptides Or Proteins (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
EP03755415A 2002-05-20 2003-05-20 GENERATION AND SELECTION OF A PROTEIN LIBRARY IN SILICO Withdrawn EP1514216A4 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US153159 1988-02-08
US153176 1993-11-16
US10/153,176 US20030022240A1 (en) 2001-04-17 2002-05-20 Generation and affinity maturation of antibody library in silico
US10/153,159 US7117096B2 (en) 2001-04-17 2002-05-20 Structure-based selection and affinity maturation of antibody library
PCT/US2003/016037 WO2003099999A2 (en) 2002-05-20 2003-05-20 Generation and selection of protein library in silico

Publications (2)

Publication Number Publication Date
EP1514216A2 EP1514216A2 (en) 2005-03-16
EP1514216A4 true EP1514216A4 (en) 2010-01-06

Family

ID=29586304

Family Applications (1)

Application Number Title Priority Date Filing Date
EP03755415A Withdrawn EP1514216A4 (en) 2002-05-20 2003-05-20 GENERATION AND SELECTION OF A PROTEIN LIBRARY IN SILICO

Country Status (7)

Country Link
EP (1) EP1514216A4 (ja)
JP (1) JP2005526518A (ja)
CN (1) CN1672160B (ja)
AU (1) AU2003248548B2 (ja)
CA (1) CA2485732A1 (ja)
SG (1) SG135053A1 (ja)
WO (1) WO2003099999A2 (ja)

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US7667004B2 (en) * 2001-04-17 2010-02-23 Abmaxis, Inc. Humanized antibodies against vascular endothelial growth factor
AU2004202566B2 (en) * 2004-06-11 2011-07-21 Li-Te Chin Method for Producing Human Antibodies with Properties of Agonist, Antagonist, or Inverse Agonist
RS20070027A (en) 2004-07-26 2008-11-28 Biogen Idec Ma Inc., Anti-cd154 antibodies
PT3540062T (pt) 2004-11-16 2021-07-06 Humanigen Inc Permuta de cassete de região variável de imunoglobulina
EP1869084A2 (en) 2005-03-04 2007-12-26 Biogen Idec MA Inc. Methods of humanizing immunoglobulin variable regions through rational modification of complementarity determining residues
NZ591252A (en) * 2006-03-17 2012-06-29 Biogen Idec Inc Methods of designing antibody or antigen binding fragments thereof with substituted non-covarying amino acids
JP5473603B2 (ja) * 2006-10-02 2014-04-16 シー レーン バイオテクノロジーズ， エルエルシー 多様な合成ペプチドおよびポリペプチドライブラリーの設計および構築
CN101647022B (zh) * 2007-01-31 2012-07-18 麦科罗医药科技(武汉)有限公司 描述蛋白质的构象和根据折叠、整体形状与结构序列对其进行评价的方法、***及装置
CA2742969A1 (en) * 2008-11-07 2010-05-14 Fabrus Llc Anti-dll4 antibodies and uses thereof
MX346002B (es) 2009-06-17 2017-03-01 Abbvie Biotherapeutics Inc Anticuerpos anti-vegf y sus usos.
DK2488867T3 (da) * 2009-10-14 2020-11-09 Janssen Biotech Inc Fremgangsmåder til affinitetsmodning af antistoffer
WO2013171810A1 (ja) 2012-05-14 2013-11-21 パナソニック株式会社 耐熱性抗体提示ファージを得る方法
US20140154255A1 (en) 2012-11-30 2014-06-05 Abbvie Biotherapeutics Inc. Anti-vegf antibodies and their uses
JP6377078B2 (ja) * 2013-01-31 2018-08-22 コデクシス， インコーポレイテッド 相互作用する構成要素を有する生体分子を同定するための方法、システム、およびソフトウェア
CN104805507B (zh) * 2014-01-29 2019-01-22 杭州康万达医药科技有限公司 噬菌体展示文库及其应用和制备方法
US10665324B2 (en) 2014-07-07 2020-05-26 Yeda Research And Development Co. Ltd. Method of computational protein design
GB201500464D0 (en) * 2015-01-12 2015-02-25 Crescendo Biolog Ltd Method of producing optimised therapeutic molecules
CN107614762B (zh) * 2015-02-24 2022-08-05 台湾地区“中央研究院” 一种由噬菌体表达的单链变异片段抗体库
CN104789555A (zh) * 2015-04-29 2015-07-22 江南大学 一种基于合成单链dna文库进化基因表达调控元件的方法
JP6558754B2 (ja) 2015-08-07 2019-08-14 富士通株式会社 情報処理装置、指標次元抽出方法、および指標次元抽出プログラム
CN116987187A (zh) 2015-09-23 2023-11-03 豪夫迈·罗氏有限公司 抗-vegf抗体的优化的变体
CN106290908A (zh) * 2016-08-07 2017-01-04 查文娟 一种用于肾脏损伤检测用试剂盒
JP6778932B2 (ja) * 2016-09-16 2020-11-04 国立大学法人大阪大学 免疫実体クラスタリングソフトウェア
CN106905435B (zh) * 2017-03-13 2020-04-10 武汉海沙百得生物技术有限公司 一种制备基于蛋白a突变体的结合蛋白的方法
WO2018195134A1 (en) * 2017-04-18 2018-10-25 X-Chem, Inc. Methods for identifying compounds
WO2019036055A2 (en) * 2017-08-18 2019-02-21 Ignite Biosciences, Inc. METHODS OF SELECTING BINDING REAGENTS
KR102615744B1 (ko) * 2017-11-20 2023-12-19 난트바이오 인코포레이티드 mRNA 디스플레이 항체 라이브러리 및 방법(mRNA DISPLAY ANTIBODY LIBRARY AND METHODS)
CN108304691B (zh) * 2018-02-09 2021-05-18 北京矿冶科技集团有限公司 基于片段的浮选药剂分子设计方法
CN108491692B (zh) * 2018-03-09 2023-07-21 中国科学院生态环境研究中心 一种构建抗生素抗性基因数据库的方法
CN108763870B (zh) * 2018-05-09 2021-08-03 浙江工业大学 一种多域蛋白质Linker构建方法
CN109002690B (zh) * 2018-06-08 2021-05-18 济南大学 通过构建charmm rotamers力场预测突变氨基酸侧链结构的方法
CN108959846B (zh) * 2018-07-03 2021-09-14 南昌立德生物技术有限公司 一种计算机辅助先导药物优化设计的亲和自由能分解算法
CN109243526B (zh) * 2018-07-12 2021-08-03 浙江工业大学 一种基于特定片段交叉的蛋白质结构预测方法
CN109086568B (zh) * 2018-08-16 2022-03-11 福建工程学院 计算机抗体组合突变进化***及方法、信息数据处理终端
CN109801679B (zh) * 2019-01-15 2021-02-02 广州柿宝生物科技有限公司 一种用于长链分子的数学序列重建方法
CN113853656A (zh) * 2019-04-09 2021-12-28 Eth苏黎世公司 用于对抗体进行分类的***和方法
EP3982369A4 (en) * 2019-06-07 2023-06-14 Chugai Seiyaku Kabushiki Kaisha INFORMATION PROCESSING SYSTEM, INFORMATION PROCESSING PROCESS, PROGRAM AND METHOD FOR PRODUCTION OF AN ANTIGEN-BINDING MOLECULE OR PROTEIN
CN115349128A (zh) * 2020-02-13 2022-11-15 齐默尔根公司 宏基因组文库和天然产物发现平台
CN111370074B (zh) * 2020-02-27 2023-07-07 北京晶泰科技有限公司 一种分子序列的生成方法、装置和计算设备
CN111462815B (zh) * 2020-03-27 2023-05-02 上海祥耀生物科技有限责任公司 一种抗体库的构建方法及装置
CN112102883B (zh) * 2020-08-20 2023-12-08 深圳华大生命科学研究院 一种fastq文件压缩中的碱基序列编码方法和***

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2002084277A1 (en) * 2001-04-17 2002-10-24 Abmaxis, Inc. Structure-based construction of human antibody library

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU3415395A (en) * 1994-08-26 1996-03-22 Eli Lilly And Company Antibody constructs with cdr switched variable regions

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2002084277A1 (en) * 2001-04-17 2002-10-24 Abmaxis, Inc. Structure-based construction of human antibody library

Also Published As

Publication number Publication date
EP1514216A2 (en) 2005-03-16
WO2003099999A2 (en) 2003-12-04
AU2003248548A1 (en) 2003-12-12
AU2003248548B2 (en) 2010-03-11
CN1672160B (zh) 2010-06-09
CA2485732A1 (en) 2003-12-04
CN1672160A (zh) 2005-09-21
JP2005526518A (ja) 2005-09-08
SG135053A1 (en) 2007-09-28
WO2003099999A3 (en) 2004-09-16

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