DK1761879T3 - Fremgangsmåder, systemer og software til identificering af funktionelle biomolekyler - Google Patents

Fremgangsmåder, systemer og software til identificering af funktionelle biomolekyler

Info

Publication number
DK1761879T3
DK1761879T3 DK05779687.2T DK05779687T DK1761879T3 DK 1761879 T3 DK1761879 T3 DK 1761879T3 DK 05779687 T DK05779687 T DK 05779687T DK 1761879 T3 DK1761879 T3 DK 1761879T3
Authority
DK
Denmark
Prior art keywords
software
systems
methods
identifying functional
functional biomolecules
Prior art date
Application number
DK05779687.2T
Other languages
English (en)
Inventor
Richard John Fox
Original Assignee
Codexis Mayflower Holdings Llc
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
Family has litigation
First worldwide family litigation filed litigation Critical https://patents.darts-ip.com/?family=35159678&utm_source=google_patent&utm_medium=platform_link&utm_campaign=public_patent_search&patent=DK1761879(T3) "Global patent litigation dataset” by Darts-ip is licensed under a Creative Commons Attribution 4.0 International License.
Application filed by Codexis Mayflower Holdings Llc filed Critical Codexis Mayflower Holdings Llc
Application granted granted Critical
Publication of DK1761879T3 publication Critical patent/DK1761879T3/da

Links

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
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1058—Directional evolution of libraries, e.g. evolution of libraries is achieved by mutagenesis and screening or selection of mixed population of organisms
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/68—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving proteins, peptides or amino acids
    • G01N33/6803—General methods of protein analysis not limited to specific proteins or families of proteins
    • G01N33/6818—Sequencing of polypeptides
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06F—ELECTRIC DIGITAL DATA PROCESSING
    • G06F30/00—Computer-aided design [CAD]
    • G—PHYSICS
    • G06—COMPUTING OR CALCULATING; COUNTING
    • G06N—COMPUTING ARRANGEMENTS BASED ON SPECIFIC COMPUTATIONAL MODELS
    • G06N20/00—Machine learning
    • 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
    • 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
    • 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
    • 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
    • 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
    • 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
    • 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

Landscapes

  • Engineering & Computer Science (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Chemical & Material Sciences (AREA)
  • Theoretical Computer Science (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Medical Informatics (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Genetics & Genomics (AREA)
  • Evolutionary Biology (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biochemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Biomedical Technology (AREA)
  • Software Systems (AREA)
  • Library & Information Science (AREA)
  • Data Mining & Analysis (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Analytical Chemistry (AREA)
  • Evolutionary Computation (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Organic Chemistry (AREA)
  • General Physics & Mathematics (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Computing Systems (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Artificial Intelligence (AREA)
  • Microbiology (AREA)
  • Medicinal Chemistry (AREA)
  • Urology & Nephrology (AREA)
  • Hematology (AREA)
  • Immunology (AREA)
  • Plant Pathology (AREA)
  • Ecology (AREA)
DK05779687.2T 2004-06-22 2005-06-21 Fremgangsmåder, systemer og software til identificering af funktionelle biomolekyler DK1761879T3 (da)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US10/874,802 US20050084907A1 (en) 2002-03-01 2004-06-22 Methods, systems, and software for identifying functional biomolecules
PCT/US2005/022119 WO2006002267A1 (en) 2004-06-22 2005-06-21 Methods, systems, and software for identifying funtional biomolecules

Publications (1)

Publication Number Publication Date
DK1761879T3 true DK1761879T3 (da) 2013-09-30

Family

ID=35159678

Family Applications (1)

Application Number Title Priority Date Filing Date
DK05779687.2T DK1761879T3 (da) 2004-06-22 2005-06-21 Fremgangsmåder, systemer og software til identificering af funktionelle biomolekyler

Country Status (5)

Country Link
US (10) US20050084907A1 (da)
EP (1) EP1761879B1 (da)
JP (1) JP2008503589A (da)
DK (1) DK1761879T3 (da)
WO (1) WO2006002267A1 (da)

Families Citing this family (184)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5605793A (en) * 1994-02-17 1997-02-25 Affymax Technologies N.V. Methods for in vitro recombination
US7024312B1 (en) * 1999-01-19 2006-04-04 Maxygen, Inc. Methods for making character strings, polynucleotides and polypeptides having desired characteristics
US7430477B2 (en) 1999-10-12 2008-09-30 Maxygen, Inc. Methods of populating data structures for use in evolutionary simulations
SG121902A1 (en) * 2000-01-11 2006-05-26 Maxygen Inc Integrated systems for diversity generation and screening
US7747391B2 (en) 2002-03-01 2010-06-29 Maxygen, Inc. Methods, systems, and software for identifying functional biomolecules
US20050084907A1 (en) * 2002-03-01 2005-04-21 Maxygen, Inc. Methods, systems, and software for identifying functional biomolecules
EP2315145B1 (en) 2002-03-01 2015-11-25 Codexis Mayflower Holdings, LLC Methods, systems, and software for identifying functional biomolecules
US7517494B2 (en) * 2003-04-30 2009-04-14 Hewlett-Packard Development Company, L.P. Test tray and test system for determining response of a biological sample
US8005620B2 (en) 2003-08-01 2011-08-23 Dna Twopointo Inc. Systems and methods for biopolymer engineering
WO2005012877A2 (en) * 2003-08-01 2005-02-10 Dna Twopointo Inc. Systems and methods for antibody engineering
US7844926B1 (en) * 2006-01-31 2010-11-30 Oracle America, Inc. Specification window violation identification with application in semiconductor device design
US8639445B2 (en) * 2007-07-23 2014-01-28 Microsoft Corporation Identification of related residues in biomolecular sequences by multiple sequence alignment and phylogenetic analysis
HUE027683T2 (en) 2007-10-01 2016-10-28 Codexis Inc Ketoreductase polypeptides for the production of azetidinone
WO2009102901A1 (en) 2008-02-12 2009-08-20 Codexis, Inc. Method of generating an optimized, diverse population of variants
US8504498B2 (en) 2008-02-12 2013-08-06 Codexis, Inc. Method of generating an optimized, diverse population of variants
WO2010025287A2 (en) * 2008-08-27 2010-03-04 Codexis, Inc. Ketoreductase polypeptides for the production of 3-aryl-3-hydroxypropanamine from a 3-aryl-3-ketopropanamine
WO2010027710A2 (en) 2008-08-27 2010-03-11 Codexis, Inc. Ketoreductase polypeptides and uses thereof
WO2010025238A2 (en) 2008-08-27 2010-03-04 Codexis, Inc. Ketoreductase polypeptides for the production of a 3-aryl-3-hydroxypropanamine from a 3-aryl-3-ketopropanamine
SI2329014T1 (sl) 2008-08-29 2015-01-30 Codexis, Inc. Polipeptidi ketoreduktaze za stereoselektivno produkcijo (4s)-3(5s)-5(4-fluorofenil)-5-hidroksipentanoil)-4-fenil-1,3-oksazolidin -2-ona
US8247192B2 (en) * 2008-11-10 2012-08-21 Codexis, Inc. Penicillin-G acylases
EP2382308B1 (en) 2008-12-25 2015-03-04 Codexis, Inc. Enone reductases
JP5707344B2 (ja) 2009-02-26 2015-04-30 コデクシス， インコーポレイテッド トランスアミナーゼ生体触媒
EP2401369B1 (en) 2009-02-26 2014-12-24 Codexis, Inc. Beta-glucosidase variant enzymes and related polynucleotides
BRPI1013886A2 (pt) 2009-03-17 2016-10-11 Codexis Inc variantes de endoglucanases, polinucleotídeos e usos a elas relacionados
CN102428170B (zh) 2009-03-31 2015-03-18 科德克希思公司 改良的内切葡聚糖酶
EP2443235A4 (en) 2009-06-16 2013-07-31 Codexis Inc ß-glucosidase VARIANTS
CN102597226B (zh) 2009-06-22 2015-08-19 科德克希思公司 转氨酶反应
US8614081B2 (en) 2009-07-23 2013-12-24 Codexis, Inc. Nitrilase biocatalysts
WO2011022548A2 (en) 2009-08-19 2011-02-24 Codexis, Inc. Ketoreductase polypeptides for the preparation of phenylephrine
WO2011028708A1 (en) 2009-09-04 2011-03-10 Codexis, Inc. Variant cbh2 cellulases and related polynucleotides
DK2483415T3 (da) 2009-09-30 2015-02-09 Codexis Inc Rekombinant c1 b-glucosidase til fremstilling af sukkere fra cellulosebiomasse
US8916366B2 (en) 2009-11-20 2014-12-23 Codexis, Inc. Multi-cellulase enzyme compositions for hydrolysis of cellulosic biomass
ES2455269T3 (es) 2009-11-25 2014-04-15 Codexis, Inc. Variantes de beta-glucosidasa recombinante para la producción de azúcares solubles de biomasa celulósica
WO2011071982A2 (en) 2009-12-08 2011-06-16 Codexis, Inc. Synthesis of prazole compounds
WO2013003290A1 (en) 2011-06-28 2013-01-03 Codexis, Inc. Protein variant generation by region shuffling
WO2011123576A2 (en) 2010-03-31 2011-10-06 Codexis, Inc. Production of monoterpenes
HUE026367T2 (en) 2010-05-04 2016-06-28 Codexis Inc Biocatalysts for ezetimibe synthesis
WO2011143632A2 (en) 2010-05-14 2011-11-17 Codexis, Inc. Cellobiohydrolase variants
EP2576804B1 (en) 2010-05-28 2016-12-14 Codexis, Inc. Pentose fermentation by a recombinant microorganism
US8932836B2 (en) 2010-08-16 2015-01-13 Codexis, Inc. Biocatalysts and methods for the synthesis of (1R,2R)-2-(3,4-dimethoxyphenethoxy)cyclohexanamine
US9322027B2 (en) 2010-08-20 2016-04-26 Shell Oil Company Expression constructs comprising fungal promoters
ES2623288T3 (es) 2010-08-20 2017-07-10 Codexis, Inc. Uso de proteínas de la familia de glicólido hidrolasa 61 en el procesamiento de celulosa
DK2635671T3 (da) 2010-11-02 2016-10-24 Codexis Inc Forbedrede svampestammer
DK2635690T3 (da) 2010-11-02 2016-02-15 Codexis Inc Sammensætninger og fremgangsmåder til fremstilling af fermenterbar sukker
DK2649187T3 (da) 2010-12-08 2018-01-29 Codexis Inc Biokatalysatorer og fremgangsmåder til syntesen af armodafinil
CA2824615A1 (en) 2010-12-21 2012-06-28 Codexis, Inc. Endoglucanase variants
US8663962B2 (en) 2011-03-30 2014-03-04 Codexis, Inc. Pentose fermentation by a recombinant microorganism
HUE038800T2 (hu) 2011-04-13 2018-11-28 Codexis Inc Biokatalitikus eljárás eszlikarbazepin és ennek analógjai elõállítására
US8778652B2 (en) 2011-06-30 2014-07-15 Codexis, Inc. Pentose fermentation by a recombinant microorganism
WO2013028701A1 (en) 2011-08-22 2013-02-28 Codexis, Inc. Gh61 glycoside hydrolase protein variants and cofactors that enhance gh61 activity
BR112014003740A2 (pt) 2011-08-23 2018-08-14 Codexis Inc variantes da celobiohidrolase
EP2753640B1 (en) 2011-09-08 2016-03-09 Codexis, Inc. Biocatalysts and methods for the synthesis of substituted lactams
EP2760997A4 (en) 2011-09-30 2015-02-11 Codexis Inc MUSHROOM PROTEASE
CN106479990B (zh) 2011-11-18 2020-09-18 科德克希思公司 用于制备羟基取代的氨基甲酸酯的生物催化剂
EP2794893A4 (en) 2011-12-20 2015-08-12 Codexis Inc PRODUCTION OF SATURATED FATTY ALCOHOLS FROM GENETICALLY MODIFIED MICROORGANISMS
US9611462B2 (en) 2011-12-20 2017-04-04 Codexis, Inc. Endoglucanase 1B (EG1B) variants
US20130252280A1 (en) * 2012-03-07 2013-09-26 Genformatic, Llc Method and apparatus for identification of biomolecules
WO2013142770A1 (en) 2012-03-23 2013-09-26 Codexis, Inc. Biocatalysts and methods for synthesizing derivatives of tryptamine and tryptamine analogs
US20150133698A1 (en) 2012-04-20 2015-05-14 Codexis, Inc. Production of fatty alcohols from engineered microorganisms
WO2013169725A2 (en) 2012-05-08 2013-11-14 Codexis, Inc. Biocatalysts and methods for hydroxylation of chemical compounds
WO2013170050A1 (en) 2012-05-11 2013-11-14 Codexis, Inc. Engineered imine reductases and methods for the reductive amination of ketone and amine compounds
US8980578B2 (en) 2012-06-11 2015-03-17 Codexis, Inc. Fungal beta-xylosidase variants
WO2014015278A1 (en) 2012-07-20 2014-01-23 Codexis, Inc. Production of fatty alcohols from engineered microorganisms
US9506087B2 (en) 2012-08-07 2016-11-29 Codexis, Inc. Glucose and xylose co-utilization in E. coli
US9611515B2 (en) 2012-11-20 2017-04-04 Codexis, Inc. Pentose fermentation by a recombinant microorganism
WO2014093070A1 (en) 2012-12-14 2014-06-19 Codexis, Inc. Modified native beta-ketoacyl-acp synthases and engineered microorganisms
SG11201504752YA (en) 2012-12-21 2015-07-30 Codexis Inc Engineered biocatalysts and methods for synthesizing chiral amines
CN105051180B (zh) 2013-01-18 2020-06-12 科德克希思公司 用于碳青霉烯类合成的工程化的生物催化剂
US10102333B2 (en) * 2013-01-21 2018-10-16 International Business Machines Corporation Feature selection for efficient epistasis modeling for phenotype prediction
RU2695146C2 (ru) * 2013-01-31 2019-07-22 Кодексис, Инк. Способы, системы и программное обеспечение для идентификации биомолекул со взаимодействующими компонентами
US9617573B2 (en) 2013-02-28 2017-04-11 Codexis, Inc. Engineered transaminase polypeptides for industrial biocatalysis
EP2970869A4 (en) 2013-03-14 2016-08-03 Codexis Inc REPRESSIBLE PROMOTER WITH LOW PHOSPHATE CONTENT
PL2986722T3 (pl) 2013-04-18 2019-10-31 Codexis Inc Skonstruowane polipeptydy amoniakoliazy fenyloalaniny
KR102160389B1 (ko) 2013-08-05 2020-09-28 트위스트 바이오사이언스 코포레이션 드 노보 합성된 유전자 라이브러리
DK3049973T3 (da) 2013-09-27 2018-10-22 Codexis Inc Automatiseret screenning af enzymvarianter
WO2015048573A1 (en) 2013-09-27 2015-04-02 Codexis, Inc. Structure based predictive modeling
CN106232619B (zh) 2013-11-13 2022-09-09 科德克希思公司 工程化的亚胺还原酶和用于酮和胺化合物的还原胺化的方法
EP3145536B1 (en) 2014-04-16 2021-10-27 Codexis, Inc. Engineered tyrosine ammonia lyase
US9708587B2 (en) 2014-07-09 2017-07-18 Codexis, Inc. P450-BM3 variants with improved activity
US10273229B2 (en) 2014-08-28 2019-04-30 Codexis, Inc. N-substituted 4-aminoquinazoline derivatives and methods of use
WO2016033304A1 (en) 2014-08-28 2016-03-03 Codexis, Inc. Imidazoyl anilide derivatives and methods of use
CN107002050A (zh) 2014-11-25 2017-08-01 科德克希思公司 工程化亚胺还原酶和用于酮和胺化合物的还原胺化的方法
US9747636B2 (en) 2014-12-08 2017-08-29 Bank Of America Corporation Enhancing information security using an information passport dashboard
CA2970638A1 (en) 2014-12-22 2016-06-30 Codexis, Inc. Human alpha-galactosidase variants
CA2975852A1 (en) 2015-02-04 2016-08-11 Twist Bioscience Corporation Methods and devices for de novo oligonucleic acid assembly
DK3256577T3 (da) 2015-02-10 2020-09-14 Codexis Inc Ketoreduktase polypeptider til syntesen af chirale forbindelser
WO2016172377A1 (en) 2015-04-21 2016-10-27 Twist Bioscience Corporation Devices and methods for oligonucleic acid library synthesis
CN107531762A (zh) 2015-05-07 2018-01-02 科德克希思公司 青霉素g酰化酶
JP6691558B2 (ja) 2015-07-07 2020-04-28 コデクシス， インコーポレイテッド 改善された活性を持つ新規のｐ４５０−ｂｍ３バリアント
KR20180050411A (ko) 2015-09-18 2018-05-14 트위스트 바이오사이언스 코포레이션 올리고핵산 변이체 라이브러리 및 그의 합성
WO2017053450A1 (en) 2015-09-22 2017-03-30 Twist Bioscience Corporation Flexible substrates for nucleic acid synthesis
EP3384077A4 (en) 2015-12-01 2019-05-08 Twist Bioscience Corporation FUNCTIONALIZED SURFACES AND MANUFACTURE THEREOF
US10379502B2 (en) 2016-04-11 2019-08-13 Accenture Global Solutions Limited Control system with machine learning time-series modeling
WO2017190211A1 (en) 2016-05-04 2017-11-09 Deep Genomics Incorporated Methods and systems for producing an expanded training set for machine learning using biological sequences
KR102382489B1 (ko) 2016-05-05 2022-04-01 코덱시스, 인코포레이티드 페니실린 ｇ 아실라제
IL263448B2 (en) 2016-06-09 2023-10-01 Codexis Inc Biological catalysts and methods for hydroxylation of chemical compounds
EP3471744A4 (en) 2016-06-15 2020-07-29 Codexis, Inc. REVISED BETA-GLUCOSIDASES AND GLUCOSYLATION PROCESSES
WO2018038772A1 (en) 2016-08-22 2018-03-01 Twist Bioscience Corporation De novo synthesized nucleic acid libraries
WO2018038906A1 (en) 2016-08-26 2018-03-01 Codexis, Inc. Engineered imine reductases and methods for the reductive amination of ketone and amine compounds
EP4664304A3 (en) 2016-09-21 2026-01-21 Atlas Data Storage, Inc. Nucleic acid based data storage
GB2573069A (en) 2016-12-16 2019-10-23 Twist Bioscience Corp Variant libraries of the immunological synapse and synthesis thereof
KR102696584B1 (ko) 2017-01-05 2024-08-19 코덱시스, 인코포레이티드 페니실린 ｇ 아실라아제
KR20260006703A (ko) 2017-02-03 2026-01-13 테이트 앤드 라일 솔루션스 유에스에이 엘엘씨 조작된 글리코실트랜스퍼라제 및 스테비올 글리코시드 글루코실화 방법
AU2018217495B2 (en) 2017-02-13 2021-03-04 Codexis, Inc. Engineered phenylalanine ammonia lyase polypeptides
WO2018156792A1 (en) 2017-02-22 2018-08-30 Twist Bioscience Corporation Nucleic acid based data storage
CA3056388A1 (en) 2017-03-15 2018-09-20 Twist Bioscience Corporation Variant libraries of the immunological synapse and synthesis thereof
JP7045725B2 (ja) 2017-04-27 2022-04-01 コデクシス， インコーポレイテッド ケトレダクターゼポリペプチドおよびポリヌクレオチド
CA3062550A1 (en) 2017-05-08 2018-11-15 Codexis, Inc. Engineered ligase variants
IL271205B2 (en) 2017-06-12 2025-02-01 Twist Bioscience Corp Methods for assembling continuous nucleic acids
WO2018231864A1 (en) 2017-06-12 2018-12-20 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
WO2018231462A1 (en) 2017-06-14 2018-12-20 Codexis, Inc. Engineered transaminase polypeptides for industrial biocatalysis
EP3645713A4 (en) 2017-06-27 2021-06-30 Codexis, Inc. PENICILLIN-G ACYLASES
KR102773542B1 (ko) 2017-06-30 2025-02-25 코덱시스, 인코포레이티드 T7 rna 폴리머라제 변이체
JP2020530267A (ja) 2017-06-30 2020-10-22 コデクシス， インコーポレイテッド Ｔ７ ｒｎａポリメラーゼバリアント
CN111566125A (zh) 2017-09-11 2020-08-21 特韦斯特生物科学公司 Gpcr结合蛋白及其合成
CN111565834B (zh) 2017-10-20 2022-08-26 特韦斯特生物科学公司 用于多核苷酸合成的加热的纳米孔
SG11202003094PA (en) 2017-11-07 2020-05-28 Codexis Inc Transglutaminase variants
AU2018383752B2 (en) 2017-12-13 2025-01-30 Codexis, Inc. Carboxyesterase polypeptides for amide coupling
IL312616B2 (en) 2018-01-04 2025-08-01 Twist Bioscience Corp Dna-based digital information storage
EP3814497A4 (en) 2018-05-18 2022-03-02 Twist Bioscience Corporation POLYNUCLEOTIDES, REAGENTS AND METHODS FOR NUCLEIC ACID HYBRIDIZATION
EP3807409A4 (en) 2018-06-12 2022-08-03 Codexis, Inc. Engineered tyrosine ammonia lyase
CN112673105A (zh) 2018-07-09 2021-04-16 科德克希思公司 工程化脱氧核糖磷酸醛缩酶
EP3821000A4 (en) 2018-07-09 2022-07-20 Codexis, Inc. MANIPULATED GALACTOSE OXIDASE ENZYME VARIANTS
JP7491588B2 (ja) 2018-07-09 2024-05-28 コデクシス， インコーポレイテッド 操作されたパントテン酸キナーゼ改変体酵素
AU2019302422B2 (en) 2018-07-09 2022-08-04 Codexis, Inc. Engineered phosphopentomutase variant enzymes
JP7461658B2 (ja) 2018-07-09 2024-04-04 コデクシス， インコーポレイテッド 操作されたプリンヌクレオシドホスホリラーゼバリアント酵素
EP3820833A4 (en) 2018-07-12 2022-08-03 Codexis, Inc. MODIFIED AMMONIA-LYASE PHENYLALANINE POLYPEPTIDES
IL319918A (en) 2018-07-30 2025-05-01 Tate & Lyle Solutions Usa Llc Engineered glycosyltransferases and methods for glycosylation of steviol glycoside
JP7780186B2 (ja) 2018-10-29 2025-12-04 コデクシス， インコーポレイテッド 操作されたｄｎａポリメラーゼバリアント
AU2019397401A1 (en) 2018-12-14 2021-06-17 Codexis, Inc. Engineered tyrosine ammonia lyase
MY207075A (en) 2018-12-20 2025-01-28 Codexis Inc Human alpha-galactosidase variants
EP3902816A4 (en) 2018-12-26 2022-09-14 Twist Bioscience Corporation HIGH-PRECISION DE NOVO POLYNUCLEOTIDE SYNTHESIS
CN113396218B (zh) 2019-01-15 2025-02-18 科德克希思公司 工程化转氨酶多肽
KR20210144698A (ko) 2019-02-26 2021-11-30 트위스트 바이오사이언스 코포레이션 항체 최적화를 위한 변이 핵산 라이브러리
CA3131689A1 (en) 2019-02-26 2020-09-03 Twist Bioscience Corporation Variant nucleic acid libraries for glp1 receptor
WO2020219463A1 (en) 2019-04-22 2020-10-29 Orbit Genomics, Inc. Methods and systems for microsatellite analysis
WO2020223422A1 (en) * 2019-04-30 2020-11-05 Amgen Inc. Data-driven predictive modeling for cell line selection in biopharmaceutical production
US12215359B2 (en) 2019-05-01 2025-02-04 Codexis, Inc. Engineered glucose dehydrogenases and methods for the reductive amination of ketone and amine compounds
EP3963057A4 (en) 2019-05-01 2023-06-14 Codexis, Inc. MANIPULATED IMINE REDUCTASES AND METHODS FOR THE REDUCTIVE AMINATION OF KETONE AND AMINE COMPOUNDS
GB201906566D0 (en) * 2019-05-09 2019-06-26 Labgenius Ltd Methods and systems for protein engineering and production
WO2020246617A1 (ja) * 2019-06-07 2020-12-10 中外製薬株式会社 情報処理システム、情報処理方法、プログラム、及び、抗原結合分子或いはタンパク質を製造する方法
EP3987019A4 (en) 2019-06-21 2023-04-19 Twist Bioscience Corporation Barcode-based nucleic acid sequence assembly
AU2020300454A1 (en) 2019-07-02 2021-12-23 Codexis, Inc. Engineered sucrose phosphorylase variant enzymes
KR20220025884A (ko) 2019-07-02 2022-03-03 코덱시스, 인코포레이티드 조작된 아세테이트 키나제 변이체 효소
BR112022003705A2 (pt) 2019-08-30 2022-05-24 Codexis Inc Lipase recombinante, composição, sequência de polinucleotídeo recombinante, vetor de expressão, composição farmacêutica para o tratamento de insuficiência pancreática, célula hospedeira, métodos para produzir uma lipase recombinante e para tratar e/ou prevenir os sintomas de insuficiência pancreática, e, uso
CN114760980B (zh) 2019-09-12 2024-10-18 科德克希思公司 针对10-乙酰基-3,7-二羟基吩噁嗪的过氧化物酶活性
CN114651064A (zh) 2019-09-13 2022-06-21 芝加哥大学 使用机器学习对蛋白质和其它序列定义的生物分子进行进化数据驱动设计的方法和设备
US12091777B2 (en) 2019-09-23 2024-09-17 Twist Bioscience Corporation Variant nucleic acid libraries for CRTH2
CN115023440B (zh) 2019-09-23 2025-09-12 特韦斯特生物科学公司 结合CD3ε的抗体
IL293038A (en) 2019-11-26 2022-07-01 Codexis Inc Biocatalysts and methods for hydroxylation of chemical compounds
CN110970098A (zh) * 2019-11-26 2020-04-07 重庆大学 一种功能多肽苦味预测方法
AU2020400030B2 (en) 2019-12-09 2026-05-21 Twist Bioscience Corporation Variant nucleic acid libraries for adenosine receptors
MX2022007399A (es) 2019-12-20 2022-09-19 Codexis Inc Variantes de alfa-glucosidasa ácida diseñadas.
EP4103711A4 (en) 2020-02-04 2024-02-28 Codexis, Inc. Engineered leucine decarboxylases
US11049590B1 (en) 2020-02-12 2021-06-29 Peptilogics, Inc. Artificial intelligence engine architecture for generating candidate drugs
CA3179679A1 (en) 2020-04-10 2021-10-14 Codexis, Inc. Carboxyesterase polypeptides for kinetic resolution
US11788071B2 (en) 2020-04-10 2023-10-17 Codexis, Inc. Engineered transaminase polypeptides
JP2023539634A (ja) 2020-08-28 2023-09-15 コデクシス， インコーポレイテッド 操作されたアミラーゼバリアント
AU2021334371A1 (en) 2020-08-28 2023-03-09 Codexis, Inc. Engineered protease variants
CN116209754A (zh) 2020-09-28 2023-06-02 科德克希思公司 用于合成手性胺的工程化生物催化剂及方法
CN116710558A (zh) 2020-10-07 2023-09-05 科德克希思公司 工程化磷酸戊糖变位酶变体酶
WO2022109462A1 (en) * 2020-11-23 2022-05-27 NE47 Bio, Inc. Protein database search using learned representations
US20220165359A1 (en) 2020-11-23 2022-05-26 Peptilogics, Inc. Generating anti-infective design spaces for selecting drug candidates
WO2022125960A1 (en) 2020-12-11 2022-06-16 Willow Biosciences, Inc. Recombinant acyl activating enzyme (aae) genes for enhanced biosynthesis of cannabinoids and cannabinoid precursors
WO2022133289A2 (en) 2020-12-18 2022-06-23 Codexis, Inc. Engineered uridine phosphorylase variant enzymes
US11439159B2 (en) 2021-03-22 2022-09-13 Shiru, Inc. System for identifying and developing individual naturally-occurring proteins as food ingredients by machine learning and database mining combined with empirical testing for a target food function
WO2022212832A1 (en) 2021-04-02 2022-10-06 Codexis, Inc. Engineered cyclic gmp-amp synthase (cgas) variant enzymes
EP4314261A1 (en) 2021-04-02 2024-02-07 Codexis, Inc. Engineered acetate kinase variant enzymes
IL305922A (en) 2021-04-02 2023-11-01 Codexis Inc Transgenic enzymes of variant guanylate kinase
US11913037B2 (en) 2021-04-02 2024-02-27 Codexis, Inc. Engineered adenylate kinase variant enzymes
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
AU2022279241A1 (en) 2021-05-21 2023-11-30 Syntis Bio, Inc. Engineered methionine gamma lyase variants
AU2022293680A1 (en) * 2021-06-15 2024-01-18 Protillion Biosciences, Inc. Methods, systems, and compositions of generating and analyzing polypeptide libraries
WO2023010083A2 (en) 2021-07-30 2023-02-02 Willow Biosciences, Inc. Recombinant prenyltransferase polypeptides engineered for enhanced biosynthesis of cannabinoids
WO2023023621A1 (en) 2021-08-19 2023-02-23 Willow Biosciences, Inc. Recombinant olivetolic acid cyclase polypeptides engineered for enhanced biosynthesis of cannabinoids
WO2023069865A1 (en) 2021-10-15 2023-04-27 Codexis, Inc. Engineered terminal deoxynucleotidyl transferase variants
WO2023064938A1 (en) 2021-10-15 2023-04-20 Codexis, Inc. Engineered dna polymerase variants
WO2023069921A1 (en) 2021-10-19 2023-04-27 Epimeron Usa, Inc. Recombinant thca synthase polypeptides engineered for enhanced biosynthesis of cannabinoids
JP2024540358A (ja) 2021-11-01 2024-10-31 シンティス バイオ，インコーポレイティド 工学操作ロイシン脱炭酸酵素
US20230290434A1 (en) * 2021-12-03 2023-09-14 Yale University Regularized deep learning based improvement of biomolecules
WO2024040020A1 (en) 2022-08-15 2024-02-22 Absci Corporation Quantitative affinity activity specific cell enrichment
US20260204353A1 (en) * 2022-12-06 2026-07-16 Revolka Ltd. Antibody design method through machine learning
WO2025144700A1 (en) 2023-12-27 2025-07-03 Absci Corporation Nanobody library screening using bacterial surface display
WO2025235589A1 (en) 2024-05-08 2025-11-13 Codexis, Inc. Dna polymerase variants

Family Cites Families (24)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6335160B1 (en) 1995-02-17 2002-01-01 Maxygen, Inc. Methods and compositions for polypeptide engineering
US6117679A (en) 1994-02-17 2000-09-12 Maxygen, Inc. Methods for generating polynucleotides having desired characteristics by iterative selection and recombination
US6537776B1 (en) * 1999-06-14 2003-03-25 Diversa Corporation Synthetic ligation reassembly in directed evolution
US20020048772A1 (en) 2000-02-10 2002-04-25 Dahiyat Bassil I. Protein design automation for protein libraries
US7315786B2 (en) 1998-10-16 2008-01-01 Xencor Protein design automation for protein libraries
US6376246B1 (en) 1999-02-05 2002-04-23 Maxygen, Inc. Oligonucleotide mediated nucleic acid recombination
US7024312B1 (en) * 1999-01-19 2006-04-04 Maxygen, Inc. Methods for making character strings, polynucleotides and polypeptides having desired characteristics
JP2002534965A (ja) 1999-01-19 2002-10-22 マキシジェン， インコーポレイテッド 所望の特徴を有する文字ストリング、ポリヌクレオチドおよびポリペプチドを作製するための方法
CA2293830C (en) * 1999-12-31 2008-07-29 Digital Security Controls Ltd. Photoelectric smoke detector and chamber therefor
WO2001059066A2 (en) 2000-02-10 2001-08-16 Xencor, Inc. Protein design automation for protein libraries
WO2001061344A1 (en) 2000-02-17 2001-08-23 California Institute Of Technology Computationally targeted evolutionary design
US20010051855A1 (en) 2000-02-17 2001-12-13 California Institute Of Technology Computationally targeted evolutionary design
US20030032059A1 (en) * 2000-05-23 2003-02-13 Zhen-Gang Wang Gene recombination and hybrid protein development
EP1283877A2 (en) * 2000-05-23 2003-02-19 California Institute Of Technology Gene recombination and hybrid protein development
WO2002031745A1 (en) * 2000-10-10 2002-04-18 Genencor International, Inc. Information rich libraries
US20030036854A1 (en) * 2001-02-06 2003-02-20 The Penn State Research Foundation Apparatus and method for designing proteins and protein libraries
EP2315145B1 (en) 2002-03-01 2015-11-25 Codexis Mayflower Holdings, LLC Methods, systems, and software for identifying functional biomolecules
US20050084907A1 (en) 2002-03-01 2005-04-21 Maxygen, Inc. Methods, systems, and software for identifying functional biomolecules
US7747391B2 (en) * 2002-03-01 2010-06-29 Maxygen, Inc. Methods, systems, and software for identifying functional biomolecules
EP1498825A1 (en) * 2002-04-04 2005-01-19 Ishihara Sangyo Kaisha, Ltd. Apparatus and method for analyzing data
US7991557B2 (en) 2004-06-19 2011-08-02 Genenews Corporation Computer system and methods for constructing biological classifiers and uses thereof
US20090312196A1 (en) 2008-06-13 2009-12-17 Codexis, Inc. Method of synthesizing polynucleotide variants
JP6510407B2 (ja) * 2012-08-16 2019-05-08 シンセティック ジェノミクス インコーポレーテッド デジタル生物学的コンバータ
DK3082056T4 (da) 2015-04-14 2022-05-02 Peaccel Fremgangsmåde og elektronisk system til forudsigelse af mindst en fitnessværdi af et protein, relateret computerprogramprodukt

Also Published As

Publication number Publication date
EP1761879A1 (en) 2007-03-14
US20140249035A1 (en) 2014-09-04
EP1761879B1 (en) 2013-08-14
US20080220990A1 (en) 2008-09-11
US20080147369A1 (en) 2008-06-19
US8762066B2 (en) 2014-06-24
US10453554B2 (en) 2019-10-22
US20070239364A1 (en) 2007-10-11
US20150065357A1 (en) 2015-03-05
US20100004135A1 (en) 2010-01-07
US7747393B2 (en) 2010-06-29
US20100005047A1 (en) 2010-01-07
US9864833B2 (en) 2018-01-09
US20100004136A1 (en) 2010-01-07
WO2006002267A1 (en) 2006-01-05
JP2008503589A (ja) 2008-02-07
US20050084907A1 (en) 2005-04-21
US20080132416A1 (en) 2008-06-05

Similar Documents

Publication Publication Date Title
DK2390803T3 (da) Fremgangsmåder, systemer og software til identificering af funktionelle biomolekyler
DK1835959T3 (da) Indretninger, systemer og fremgangsmåder til afgivelse af fluidum
DK1759318T3 (da) Fremgangsmåder og systemer til at administrere data
FI20041323A0 (fi) Analysoija, järjestelmä ja menetelmä toivotun käyttäjäjoukon määrittämiseksi
EP1732247A4 (en) POSITIONING SYSTEM, POSITIONING METHOD, AND PROGRAM THEREOF
DK1558934T3 (da) Fremgangsmåde til vurdering af partikler
MA28542B1 (fr) Système à rétention gastrique
DK1677214T3 (da) Udvideligt filsystem
DE602005007052D1 (de) Schnappschuss-System
DE602006017285D1 (de) Kryptographisches Kommunikationssystem und -methode
DK3045545T3 (da) Fremgangsmåde og indretning til karakterisering og tælling af partikler, især biologiske partikler
DE602005027017D1 (de) System, Verfahren und Server zur Anwesenheitsinformationsbereitstellung
DK1529072T3 (da) Fremgangsmåder til ekstraktion af polymere
EP1880522A4 (en) METHOD, SYSTEM AND DEVICE FOR ENABLING DATA COMMUNICATION
DK1756536T3 (da) Fremgangsmåde og system til vurdering af prøver
NL1029167A1 (nl) Werkwijzen en systemen voor gegevensintegratie.
NL1031620A1 (nl) Lenscorrectie-element, systeem en werkwijze.
DE602004011999D1 (de) Mehrbenutzer-übertragungssystem
DK1976884T3 (da) Anti-ephrinb2-antistoffer og fremgangsmåder til anvendelse deraf.
DK1510174T3 (da) Apparat, fremgangsmåde og software til sporing af en genstand
DK1587897T3 (da) Fremgangsmåde til hydrobehandling af carbonhydrider under anvendelse af en modificeret hydrobehandlingskatalysator
EP1807989A4 (en) SYSTEMS AND METHODS FOR INTERMEDIATE LOW FREQUENCY RECEIVER (FI)
FI20040238L (fi) Tietojenkäsittelyjärjestelmä
NL1026544A1 (nl) Systemen en werkwijzen voor fasecoderingsplaatsing.
FI20050921L (fi) Automaattivalotusmenetelmä ja -järjestelmä