WO2005017804A3 - Methods and system for multi-drug treatment discovery - Google Patents

Methods and system for multi-drug treatment discovery Download PDF

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Publication number
WO2005017804A3
WO2005017804A3 PCT/US2004/026366 US2004026366W WO2005017804A3 WO 2005017804 A3 WO2005017804 A3 WO 2005017804A3 US 2004026366 W US2004026366 W US 2004026366W WO 2005017804 A3 WO2005017804 A3 WO 2005017804A3
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WO
WIPO (PCT)
Prior art keywords
methods
treatment
drug treatment
original
systems
Prior art date
Application number
PCT/US2004/026366
Other languages
French (fr)
Other versions
WO2005017804A2 (en
Inventor
James M Minor
Original Assignee
Agilent Technologies Inc
James M Minor
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 Agilent Technologies Inc, James M Minor filed Critical Agilent Technologies Inc
Priority to EP04781107A priority Critical patent/EP1654686A2/en
Publication of WO2005017804A2 publication Critical patent/WO2005017804A2/en
Publication of WO2005017804A3 publication Critical patent/WO2005017804A3/en

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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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • G16B25/10—Gene or protein expression profiling; Expression-ratio estimation or normalisation
    • 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
    • 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
    • G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR
    • 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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10S—TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10S977/00—Nanotechnology
    • Y10S977/70—Nanostructure
    • Y10S977/788—Of specified organic or carbon-based composition
    • Y10S977/789—Of specified organic or carbon-based composition in array format
    • Y10S977/79—Of specified organic or carbon-based composition in array format with heterogeneous nanostructures
    • Y10S977/791—Molecular array
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10S—TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10S977/00—Nanotechnology
    • Y10S977/839—Mathematical algorithms, e.g. computer software, specifically adapted for modeling configurations or properties of nanostructure

Abstract

Methods, systems and recordable media for using expression data characterizing protein pathways of diseases to produce phase relationships between treatment responses of diseased tissues to treatments applied thereto and expression profiles of the diseased tissues as measured when untreated. Methods, systems and recordable media for augmenting an original or existing treatment or treatment combination with one or more treatments that cover gene activity of a disease not addressed by the original/existing treatment.
PCT/US2004/026366 2003-08-13 2004-08-13 Methods and system for multi-drug treatment discovery WO2005017804A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
EP04781107A EP1654686A2 (en) 2003-08-13 2004-08-13 Methods and system for multi-drug treatment discovery

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US10/640,081 2003-08-13
US10/640,081 US7348144B2 (en) 2003-08-13 2003-08-13 Methods and system for multi-drug treatment discovery

Publications (2)

Publication Number Publication Date
WO2005017804A2 WO2005017804A2 (en) 2005-02-24
WO2005017804A3 true WO2005017804A3 (en) 2006-03-23

Family

ID=34136015

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2004/026366 WO2005017804A2 (en) 2003-08-13 2004-08-13 Methods and system for multi-drug treatment discovery

Country Status (3)

Country Link
US (2) US7348144B2 (en)
EP (1) EP1654686A2 (en)
WO (1) WO2005017804A2 (en)

Families Citing this family (23)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP2007034343A (en) * 2005-07-21 2007-02-08 Fujitsu Ltd Genetic information display device, genetic information display method, genetic information display program and recording medium
WO2007038414A2 (en) * 2005-09-27 2007-04-05 Indiana University Research & Technology Corporation Mining protein interaction networks
US9409139B2 (en) 2013-08-05 2016-08-09 Twist Bioscience Corporation De novo synthesized gene libraries
CA2975852A1 (en) 2015-02-04 2016-08-11 Twist Bioscience Corporation Methods and devices for de novo oligonucleic acid assembly
WO2016126987A1 (en) 2015-02-04 2016-08-11 Twist Bioscience Corporation Compositions and methods for synthetic gene assembly
US9981239B2 (en) 2015-04-21 2018-05-29 Twist Bioscience Corporation Devices and methods for oligonucleic acid library synthesis
AU2016324296A1 (en) 2015-09-18 2018-04-12 Twist Bioscience Corporation Oligonucleic acid variant libraries and synthesis thereof
US11512347B2 (en) 2015-09-22 2022-11-29 Twist Bioscience Corporation Flexible substrates for nucleic acid synthesis
CN115920796A (en) 2015-12-01 2023-04-07 特韦斯特生物科学公司 Functionalized surfaces and preparation thereof
CA3034769A1 (en) 2016-08-22 2018-03-01 Twist Bioscience Corporation De novo synthesized nucleic acid libraries
WO2018057526A2 (en) 2016-09-21 2018-03-29 Twist Bioscience Corporation Nucleic acid based data storage
US10907274B2 (en) 2016-12-16 2021-02-02 Twist Bioscience Corporation Variant libraries of the immunological synapse and synthesis thereof
CN110892485B (en) 2017-02-22 2024-03-22 特韦斯特生物科学公司 Nucleic acid-based data storage
EP3595674A4 (en) 2017-03-15 2020-12-16 Twist Bioscience Corporation Variant libraries of the immunological synapse and synthesis thereof
WO2018231864A1 (en) 2017-06-12 2018-12-20 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
US10696965B2 (en) 2017-06-12 2020-06-30 Twist Bioscience Corporation Methods for seamless nucleic acid assembly
EP3681906A4 (en) 2017-09-11 2021-06-09 Twist Bioscience Corporation Gpcr binding proteins and synthesis thereof
GB2583590A (en) 2017-10-20 2020-11-04 Twist Bioscience Corp Heated nanowells for polynucleotide synthesis
KR20200106067A (en) 2018-01-04 2020-09-10 트위스트 바이오사이언스 코포레이션 DNA-based digital information storage
SG11202011467RA (en) 2018-05-18 2020-12-30 Twist Bioscience Corp Polynucleotides, reagents, and methods for nucleic acid hybridization
KR20210143766A (en) 2019-02-26 2021-11-29 트위스트 바이오사이언스 코포레이션 Variant Nucleic Acid Libraries for the GLP1 Receptor
WO2020176680A1 (en) 2019-02-26 2020-09-03 Twist Bioscience Corporation Variant nucleic acid libraries for antibody optimization
CA3144644A1 (en) 2019-06-21 2020-12-24 Twist Bioscience Corporation Barcode-based nucleic acid sequence assembly

Citations (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2000039336A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Methods of characterizing drug activities using consensus profiles
WO2000039337A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Methods for robust discrimination of profiles
EP1037158A2 (en) * 1999-03-15 2000-09-20 Whitehead Institute For Biomedical Research Methods and apparatus for analyzing gene expression data
WO2000063435A2 (en) * 1999-04-15 2000-10-26 Curagen Corporation Method of identifying toxic agents using differential gene expression
US6203987B1 (en) * 1998-10-27 2001-03-20 Rosetta Inpharmatics, Inc. Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns
WO2001062229A1 (en) * 2000-02-24 2001-08-30 Advanced Pharma, Inc. Therapeutic product, use and formulation thereof
US6453241B1 (en) * 1998-12-23 2002-09-17 Rosetta Inpharmatics, Inc. Method and system for analyzing biological response signal data
US20030088437A1 (en) * 2001-11-08 2003-05-08 Iobst Susanne Teklits Method for identifying skin conditions, selecting suitable treatment products, or predicting product efficacy

Family Cites Families (16)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5860917A (en) 1997-01-15 1999-01-19 Chiron Corporation Method and apparatus for predicting therapeutic outcomes
US6188969B1 (en) 1998-02-26 2001-02-13 Chiron Corporation Multi-measurement method of comparing and normalizing assays
US6320196B1 (en) 1999-01-28 2001-11-20 Agilent Technologies, Inc. Multichannel high dynamic range scanner
US6251685B1 (en) 1999-02-18 2001-06-26 Agilent Technologies, Inc. Readout method for molecular biological electronically addressable arrays
US6323043B1 (en) 1999-04-30 2001-11-27 Agilent Technologies, Inc. Fabricating biopolymer arrays
US6242266B1 (en) 1999-04-30 2001-06-05 Agilent Technologies Inc. Preparation of biopolymer arrays
US6355921B1 (en) 1999-05-17 2002-03-12 Agilent Technologies, Inc. Large dynamic range light detection
US6371370B2 (en) 1999-05-24 2002-04-16 Agilent Technologies, Inc. Apparatus and method for scanning a surface
US6180351B1 (en) 1999-07-22 2001-01-30 Agilent Technologies Inc. Chemical array fabrication with identifier
US6222664B1 (en) 1999-07-22 2001-04-24 Agilent Technologies Inc. Background reduction apparatus and method for confocal fluorescence detection systems
US6486457B1 (en) 1999-10-07 2002-11-26 Agilent Technologies, Inc. Apparatus and method for autofocus
US6232072B1 (en) 1999-10-15 2001-05-15 Agilent Technologies, Inc. Biopolymer array inspection
US6171797B1 (en) 1999-10-20 2001-01-09 Agilent Technologies Inc. Methods of making polymeric arrays
US6406849B1 (en) 1999-10-29 2002-06-18 Agilent Technologies, Inc. Interrogating multi-featured arrays
AU2002211835A1 (en) * 2000-09-29 2002-04-08 Clinomics Laboratories, Inc. Oncology tissue microarrays
CA2498418A1 (en) * 2002-09-10 2004-03-25 Guennadi V. Glinskii Gene segregation and biological sample classification methods

Patent Citations (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6203987B1 (en) * 1998-10-27 2001-03-20 Rosetta Inpharmatics, Inc. Methods for using co-regulated genesets to enhance detection and classification of gene expression patterns
WO2000039336A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Methods of characterizing drug activities using consensus profiles
WO2000039337A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Methods for robust discrimination of profiles
US6453241B1 (en) * 1998-12-23 2002-09-17 Rosetta Inpharmatics, Inc. Method and system for analyzing biological response signal data
EP1037158A2 (en) * 1999-03-15 2000-09-20 Whitehead Institute For Biomedical Research Methods and apparatus for analyzing gene expression data
WO2000063435A2 (en) * 1999-04-15 2000-10-26 Curagen Corporation Method of identifying toxic agents using differential gene expression
WO2001062229A1 (en) * 2000-02-24 2001-08-30 Advanced Pharma, Inc. Therapeutic product, use and formulation thereof
US20030088437A1 (en) * 2001-11-08 2003-05-08 Iobst Susanne Teklits Method for identifying skin conditions, selecting suitable treatment products, or predicting product efficacy

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
CRUCITTA E ET AL: "Taxol, gemcitabine and vinorelbine, a very active platinum free triplet in naive patients with Non Small Cell Lung Cancer", EUROPEAN JOURNAL OF CANCER, PERGAMON PRESS, OXFORD, GB, vol. 37, April 2001 (2001-04-01), pages S57, XP004477440, ISSN: 0959-8049 *
SCHERF U ET AL: "A gene expression database for the molecular pharmacology of cancer", NATURE GENETICS, NATURE AMERICA, NEW YORK, US, vol. 24, no. 3, March 2000 (2000-03-01), pages 236 - 244, XP002224798, ISSN: 1061-4036 *

Also Published As

Publication number Publication date
WO2005017804A2 (en) 2005-02-24
US7348144B2 (en) 2008-03-25
EP1654686A2 (en) 2006-05-10
US20050037363A1 (en) 2005-02-17
US20050282227A1 (en) 2005-12-22

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