WO2000046405A3 - Methods for identifying drug targets based on genomic sequence data - Google Patents

Methods for identifying drug targets based on genomic sequence data Download PDF

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Publication number
WO2000046405A3
WO2000046405A3 PCT/US2000/002882 US0002882W WO0046405A3 WO 2000046405 A3 WO2000046405 A3 WO 2000046405A3 US 0002882 W US0002882 W US 0002882W WO 0046405 A3 WO0046405 A3 WO 0046405A3
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WO
WIPO (PCT)
Prior art keywords
drug targets
targets based
methods
sequence data
genomic sequence
Prior art date
Application number
PCT/US2000/002882
Other languages
French (fr)
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WO2000046405A2 (en
WO2000046405A9 (en
Inventor
Bernhard Palsson
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Bernhard Palsson
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
Application filed by Bernhard Palsson filed Critical Bernhard Palsson
Priority to EP00913358A priority Critical patent/EP1147229A2/en
Priority to AU34822/00A priority patent/AU3482200A/en
Publication of WO2000046405A2 publication Critical patent/WO2000046405A2/en
Publication of WO2000046405A3 publication Critical patent/WO2000046405A3/en
Publication of WO2000046405A9 publication Critical patent/WO2000046405A9/en

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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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • 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
    • 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
    • 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

Abstract

This invention provides a computational approach to identifying potential antibacterial drug targets based on a genome sequence and its annotation. Starting from a fully sequenced genome, open reading frame assignments are made which determine the metabolic genotype for the organism. The metabolic genotype, and more specifically its stoichiometric matrix, are analyzed using flux balance analysis to assess the effects of genetic deletions on the fitness of the organism and its ability to produce essential biomolecules required for growth.
PCT/US2000/002882 1999-02-02 2000-02-02 Methods for identifying drug targets based on genomic sequence data WO2000046405A2 (en)

Priority Applications (2)

Application Number Priority Date Filing Date Title
EP00913358A EP1147229A2 (en) 1999-02-02 2000-02-02 Methods for identifying drug targets based on genomic sequence data
AU34822/00A AU3482200A (en) 1999-02-02 2000-02-02 Methods for identifying drug targets based on genomic sequence data

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US24302299A 1999-02-02 1999-02-02
US09/243,022 1999-02-02

Publications (3)

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WO2000046405A2 WO2000046405A2 (en) 2000-08-10
WO2000046405A3 true WO2000046405A3 (en) 2001-05-10
WO2000046405A9 WO2000046405A9 (en) 2001-09-07

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Family Applications (1)

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PCT/US2000/002882 WO2000046405A2 (en) 1999-02-02 2000-02-02 Methods for identifying drug targets based on genomic sequence data

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US (4) US8606553B2 (en)
EP (1) EP1147229A2 (en)
AU (1) AU3482200A (en)
WO (1) WO2000046405A2 (en)

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