WO2002025570A3 - Systems, methods and computer program products for processing genomic data in an object-oriented environment - Google Patents

Systems, methods and computer program products for processing genomic data in an object-oriented environment Download PDF

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Publication number
WO2002025570A3
WO2002025570A3 PCT/US2001/042053 US0142053W WO0225570A3 WO 2002025570 A3 WO2002025570 A3 WO 2002025570A3 US 0142053 W US0142053 W US 0142053W WO 0225570 A3 WO0225570 A3 WO 0225570A3
Authority
WO
WIPO (PCT)
Prior art keywords
experiments
genes
genomic data
expression levels
methods
Prior art date
Application number
PCT/US2001/042053
Other languages
French (fr)
Other versions
WO2002025570A2 (en
Inventor
John Thompson Wilbanks
Suresh Toby Segaran
Antoun Alexander Nabhan
Diane Joyce Hesterberg
Original Assignee
Arrayex 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
Application filed by Arrayex Inc filed Critical Arrayex Inc
Priority to AU2001291291A priority Critical patent/AU2001291291A1/en
Publication of WO2002025570A2 publication Critical patent/WO2002025570A2/en
Publication of WO2002025570A3 publication Critical patent/WO2002025570A3/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
    • G16B50/00—ICT programming tools or database systems specially adapted for bioinformatics
    • 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
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression

Abstract

Systems, methods and computer program products process genomic data by providing a hierarchy of object superclasses and subclasses that represent genomic data, each object superclass/subclass including associated variables for the genomic data and methods that are performed on the genomic data, also referred to as an object library. Gene expression levels among genes in experiments that meet a predefined percentage change in expression level between the plurality of experiments may be displayed. The patterns of gene expression levels among the genes in the experiments also may be displayed as a function of gene families to which the plurality of genes in the plurality of experiments belong. The patterns of gene expression levels among the genes in the experiments also may be displayed as a function of gene families to which the plurality of genes in the plurality of experiments belong. The patterns of gene expression levels among the genes in the experiments also may be displayed as a scatter plot of gene expression levels among genes in two experiments, wherein at least some of the points in the scatter plot are surrounded by an error cloud that indicates an amount of error in the two experiments.
PCT/US2001/042053 2000-09-07 2001-09-06 Systems, methods and computer program products for processing genomic data in an object-oriented environment WO2002025570A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2001291291A AU2001291291A1 (en) 2000-09-07 2001-09-06 Systems, methods and computer program products for processing genomic data in an object-oriented environment

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US65721800A 2000-09-07 2000-09-07
US09/657,218 2000-09-07

Publications (2)

Publication Number Publication Date
WO2002025570A2 WO2002025570A2 (en) 2002-03-28
WO2002025570A3 true WO2002025570A3 (en) 2005-07-14

Family

ID=24636297

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2001/042053 WO2002025570A2 (en) 2000-09-07 2001-09-06 Systems, methods and computer program products for processing genomic data in an object-oriented environment

Country Status (2)

Country Link
AU (1) AU2001291291A1 (en)
WO (1) WO2002025570A2 (en)

Families Citing this family (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2004114191A2 (en) * 2003-06-20 2004-12-29 Helix Genomics Pvt. Ltd. Method and apparatus for object based biological information, manipulation and management
US20070026406A1 (en) * 2003-08-13 2007-02-01 Iconix Pharmaceuticals, Inc. Apparatus and method for classifying multi-dimensional biological data
US7588892B2 (en) 2004-07-19 2009-09-15 Entelos, Inc. Reagent sets and gene signatures for renal tubule injury
US7467118B2 (en) 2006-01-12 2008-12-16 Entelos Inc. Adjusted sparse linear programming method for classifying multi-dimensional biological data
US8812422B2 (en) * 2012-04-09 2014-08-19 Good Start Genetics, Inc. Variant database
RU2577107C2 (en) * 2013-10-04 2016-03-10 Федеральное государственное бюджетное образовательное учреждение высшего профессионального образования "Московский государственный университет имени М.В. Ломоносова" (МГУ) Method for searching target proteins triggering process of carcinogenesis, in individual patient's tissue samples for purposes of subsequent antitumour medicinal treatment
CN108537008A (en) * 2018-03-20 2018-09-14 常州大学 High-throughput gene sequencing big data analysis cloud platform system

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1998057263A1 (en) * 1997-06-11 1998-12-17 Netgenics Corporation System for facilitating drug discovery data and method thereof
WO2000039338A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Method and system for analyzing biological response signal data
WO2002021422A2 (en) * 2000-09-07 2002-03-14 Incyte Genomics, Inc. System and method for representing and manipulating biological data using a biological object model

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1998057263A1 (en) * 1997-06-11 1998-12-17 Netgenics Corporation System for facilitating drug discovery data and method thereof
WO2000039338A1 (en) * 1998-12-23 2000-07-06 Rosetta Inpharmatics, Inc. Method and system for analyzing biological response signal data
WO2002021422A2 (en) * 2000-09-07 2002-03-14 Incyte Genomics, Inc. System and method for representing and manipulating biological data using a biological object model

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
PATON N W ET AL: "Conceptual Modelling of Genomic Information", BIOINFORMATICS, OXFORD UNIVERSITY PRESS, OXFORD,, GB, vol. 16, no. 6, June 2000 (2000-06-01), pages 548 - 557, XP002207395, ISSN: 1367-4803 *
PRESS W H ET AL: "Numerical Recipes in C - The Art of Scientific Computing, Second Edition", 1992, CAMBRIDGE UNIVERSITY PRESS, XP002325098 *

Also Published As

Publication number Publication date
AU2001291291A1 (en) 2002-04-02
WO2002025570A2 (en) 2002-03-28

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