WO2002046474A3 - Method and system for identifying time-series relationships of gene expression level using signal processing metrics - Google Patents

Method and system for identifying time-series relationships of gene expression level using signal processing metrics Download PDF

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Publication number
WO2002046474A3
WO2002046474A3 PCT/US2001/047163 US0147163W WO0246474A3 WO 2002046474 A3 WO2002046474 A3 WO 2002046474A3 US 0147163 W US0147163 W US 0147163W WO 0246474 A3 WO0246474 A3 WO 0246474A3
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WO
WIPO (PCT)
Prior art keywords
signal processing
gene expression
time
expression level
series
Prior art date
Application number
PCT/US2001/047163
Other languages
French (fr)
Other versions
WO2002046474A2 (en
Inventor
Atul Janardhan Butte
Isaac S Kohane
Original Assignee
Childrens Medical Center
Atul Janardhan Butte
Isaac S Kohane
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 Childrens Medical Center, Atul Janardhan Butte, Isaac S Kohane filed Critical Childrens Medical Center
Priority to AU2002236577A priority Critical patent/AU2002236577A1/en
Publication of WO2002046474A2 publication Critical patent/WO2002046474A2/en
Publication of WO2002046474A3 publication Critical patent/WO2002046474A3/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
    • 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

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  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Medical Informatics (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Data Mining & Analysis (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Evolutionary Computation (AREA)
  • Artificial Intelligence (AREA)
  • Public Health (AREA)
  • Software Systems (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioethics (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Abstract

The present invention converts gene expression patterns measured in time-series experiments into discrete, time-invariant signals, which are then evaluated using digital signal processing techniques/metrics, such as discrete Fourier transforms, power spectral densities, coherence, transfer gain, and phase shift. The processing techniques of the invention take into account the time-series aspects of the data set and identify gene-gene associations without 'a priori' limitations.
PCT/US2001/047163 2000-11-10 2001-11-13 Method and system for identifying time-series relationships of gene expression level using signal processing metrics WO2002046474A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2002236577A AU2002236577A1 (en) 2000-11-10 2001-11-13 Method and system for identifying time-series relationships of gene expression level using signal processing metrics

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US24711000P 2000-11-10 2000-11-10
US60/247,110 2000-11-10

Publications (2)

Publication Number Publication Date
WO2002046474A2 WO2002046474A2 (en) 2002-06-13
WO2002046474A3 true WO2002046474A3 (en) 2002-11-14

Family

ID=22933592

Family Applications (3)

Application Number Title Priority Date Filing Date
PCT/US2001/043604 WO2002039214A2 (en) 2000-11-10 2001-11-12 Relevance networks for visualizing clusters in gene expression data
PCT/US2001/047087 WO2002059820A1 (en) 2000-11-10 2001-11-13 Method and apparatus for determining fold difference significance
PCT/US2001/047163 WO2002046474A2 (en) 2000-11-10 2001-11-13 Method and system for identifying time-series relationships of gene expression level using signal processing metrics

Family Applications Before (2)

Application Number Title Priority Date Filing Date
PCT/US2001/043604 WO2002039214A2 (en) 2000-11-10 2001-11-12 Relevance networks for visualizing clusters in gene expression data
PCT/US2001/047087 WO2002059820A1 (en) 2000-11-10 2001-11-13 Method and apparatus for determining fold difference significance

Country Status (2)

Country Link
AU (2) AU2002219817A1 (en)
WO (3) WO2002039214A2 (en)

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP3016362A1 (en) 2014-11-03 2016-05-04 OpenTV Europe SAS Method and system to share advertisement content from a main device to a secondary device
US11892990B2 (en) 2021-01-04 2024-02-06 International Business Machines Corporation Removal of transaction noise
CN117151031B (en) * 2023-10-26 2024-01-30 国网经济技术研究院有限公司 Design evaluation method and system for parallel busbar of high-power electronic device

Non-Patent Citations (6)

* Cited by examiner, † Cited by third party
Title
BERTUCCI F ET AL: "EXPRESSION SCANNING OF AN ARRAY OF GROWTH CONTROL GENES IN HUMAN TUMOR CELL LINES", ONCOGENE, BASINGSTOKE, HANTS, GB, vol. 18, no. 26, 1999, pages 3905 - 3912, XP000979482, ISSN: 0950-9232 *
BUTTE A J ET AL: "Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks.", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. UNITED STATES 24 OCT 2000, vol. 97, no. 22, 24 October 2000 (2000-10-24), pages 12182 - 12186, XP002204532, ISSN: 0027-8424 *
BUTTE A J ET AL: "Unsupervised knowledge discovery in medical databases using relevance networks.", PROCEEDINGS / AMIA... ANNUAL SYMPOSIUM. AMIA SYMPOSIUM. UNITED STATES 1999, 1999, pages 711 - 715, XP002204533, ISSN: 1531-605X *
DEPETRILLO P B ET AL: "Derivation of a scale-independent parameter which characterizes genetic sequence comparisons.", COMPUTERS AND BIOMEDICAL RESEARCH, AN INTERNATIONAL JOURNAL. UNITED STATES DEC 1993, vol. 26, no. 6, December 1993 (1993-12-01), pages 517 - 540, XP002204534, ISSN: 0010-4809 *
GRANJEAUD S ET AL: "EXPRESSION PROFILING: DNA ARRAYS IN MANY GUISES", BIOESSAYS, CAMBRIDGE, GB, vol. 21, 1999, pages 781 - 790, XP000979524, ISSN: 0265-9247 *
SPELLMAN ET AL: "COMPREHENSIVE IDENTIFICATION OF CELL CYCLE-REGULATED GENES OF THE YEAST SACCHAROMYCES CEREVISIAE BY MICROARRAY HYBRIDIZATION", MOLECULAR BIOLOGY OF THE CELL, BETHESDA, MD, US, vol. 9, December 1998 (1998-12-01), pages 3273 - 3297, XP002143737, ISSN: 1059-1524 *

Also Published As

Publication number Publication date
WO2002039214A2 (en) 2002-05-16
WO2002039214A3 (en) 2002-11-21
WO2002039214A9 (en) 2003-02-06
WO2002046474A2 (en) 2002-06-13
AU2002219817A1 (en) 2002-05-21
WO2002059820A9 (en) 2003-11-20
AU2002236577A1 (en) 2002-06-18
WO2002059820A1 (en) 2002-08-01

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