WO2002036812A3 - Nonlinear system identification for class prediction in bioinformatics and related applications - Google Patents

Nonlinear system identification for class prediction in bioinformatics and related applications Download PDF

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Publication number
WO2002036812A3
WO2002036812A3 PCT/CA2001/001547 CA0101547W WO0236812A3 WO 2002036812 A3 WO2002036812 A3 WO 2002036812A3 CA 0101547 W CA0101547 W CA 0101547W WO 0236812 A3 WO0236812 A3 WO 0236812A3
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WO
WIPO (PCT)
Prior art keywords
class
nonlinear system
nonlinear
found
bioinformatics
Prior art date
Application number
PCT/CA2001/001547
Other languages
French (fr)
Other versions
WO2002036812A2 (en
WO2002036812A9 (en
Inventor
Michael Korenberg
Original Assignee
Michael Korenberg
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
Priority claimed from CA 2325225 external-priority patent/CA2325225A1/en
Application filed by Michael Korenberg filed Critical Michael Korenberg
Priority to CA002465661A priority Critical patent/CA2465661A1/en
Priority to EP01983359A priority patent/EP1466289A2/en
Priority to AU2002214871A priority patent/AU2002214871A1/en
Publication of WO2002036812A2 publication Critical patent/WO2002036812A2/en
Publication of WO2002036812A9 publication Critical patent/WO2002036812A9/en
Priority to US10/428,776 priority patent/US20030195706A1/en
Publication of WO2002036812A3 publication Critical patent/WO2002036812A3/en
Priority to US11/744,599 priority patent/US20070276610A1/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
    • 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
    • G16B40/20—Supervised data analysis
    • 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

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

Abstract

The present invention provides a method for class prediction in bioinformatics based on identifying a nonlinear system that has been defined for carrying out a given classification task. Information characteristic of exemplars from the classes to be distinguished is used to create training inputs, and the training outputs are representative of the class distinctions to be made. Nonlinear systems are found to approximate the defined input/output relations, and these nonlinear systems are then used to classify new data samples. In another aspect of the invention, information characteristic of exemplars from one class are used to create a training input and output. A nonlinear system is found to approximate the created input/output relation and thus represent the class, and together with nonlinear systems found to represent the other classes, is used to classify new data samples.
PCT/CA2001/001547 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications WO2002036812A2 (en)

Priority Applications (5)

Application Number Priority Date Filing Date Title
CA002465661A CA2465661A1 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications
EP01983359A EP1466289A2 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications
AU2002214871A AU2002214871A1 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications
US10/428,776 US20030195706A1 (en) 2000-11-20 2003-05-05 Method for classifying genetic data
US11/744,599 US20070276610A1 (en) 2000-11-20 2007-05-04 Method for classifying genetic data

Applications Claiming Priority (8)

Application Number Priority Date Filing Date Title
US24523600P 2000-11-03 2000-11-03
US60/245,236 2000-11-03
US24946200P 2000-11-20 2000-11-20
US60/249,462 2000-11-20
CA2,325,225 2000-11-20
CA 2325225 CA2325225A1 (en) 2000-11-03 2000-11-20 Nonlinear system identification for class prediction in bioinformatics and related applications
US26801901P 2001-02-13 2001-02-13
US60/268,019 2001-02-13

Related Child Applications (2)

Application Number Title Priority Date Filing Date
US10/428,776 Continuation-In-Part US20030195706A1 (en) 2000-11-20 2003-05-05 Method for classifying genetic data
US11/744,599 Continuation-In-Part US20070276610A1 (en) 2000-11-20 2007-05-04 Method for classifying genetic data

Publications (3)

Publication Number Publication Date
WO2002036812A2 WO2002036812A2 (en) 2002-05-10
WO2002036812A9 WO2002036812A9 (en) 2003-01-23
WO2002036812A3 true WO2002036812A3 (en) 2004-05-21

Family

ID=27427658

Family Applications (2)

Application Number Title Priority Date Filing Date
PCT/CA2001/001552 WO2002037202A2 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications
PCT/CA2001/001547 WO2002036812A2 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications

Family Applications Before (1)

Application Number Title Priority Date Filing Date
PCT/CA2001/001552 WO2002037202A2 (en) 2000-11-03 2001-11-05 Nonlinear system identification for class prediction in bioinformatics and related applications

Country Status (4)

Country Link
EP (1) EP1466289A2 (en)
AU (2) AU2002214871A1 (en)
CA (1) CA2465661A1 (en)
WO (2) WO2002037202A2 (en)

Families Citing this family (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20030195706A1 (en) * 2000-11-20 2003-10-16 Michael Korenberg Method for classifying genetic data
CA2631870C (en) * 2005-11-29 2021-07-06 Venture Gain, L.L.C. Residual-based monitoring of human health
DE102007005070B4 (en) 2007-02-01 2010-05-27 Klippel, Wolfgang, Dr. Arrangement and method for the optimal estimation of the linear parameters and the non-linear parameters of a model describing a transducer
EP2180435A4 (en) * 2007-08-22 2011-01-05 Fujitsu Ltd Compound property prediction apparatus, property prediction method and program for executing the method
CN112232476B (en) 2018-05-10 2024-04-16 创新先进技术有限公司 Method and device for updating test sample set
CN112925202B (en) * 2021-01-19 2022-10-11 北京工业大学 Fermentation process stage division method based on dynamic feature extraction
CN115223660B (en) * 2022-09-20 2023-03-10 清华大学 Training method and device of biological population evaluation model and electronic equipment

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
EKLUND J M; KORENBERG M J: "Simulation of aircraft pilot flight controls using nonlinear system", SIMULATION, SIMULATION COUNCILS, vol. 75, no. 2, August 2000 (2000-08-01), USA, pages 72 - 81, XP009027173 *
KORENBERG M J; DAVID R; HUNTER I W; SOLOMON J E: "Automatic classification of protein sequences into structure/function groups via parallel cascade identification: a feasibility study", ANNALS OF BIOMEDICAL ENGINEERING, vol. 28, no. 7, July 2000 (2000-07-01), USA, pages 803 - 811, XP009027126 *
KORENBERG M J; DOHERTY P W: "Rapid DTMF signal classification via parallel cascade identification", ELECTRONICS LETTERS, IEE, vol. 32, no. 20, 26 September 1999 (1999-09-26), UK, pages 1862 - 1863, XP006005765 *
KORENBERG M J; SOLOMON J E; REGELSON M E: "Parallel cascade identification as a means for automatically classifying protein sequences into structure/function groups", BIOLOGICAL CYBERNETICS, SPRINGER VERLAG, vol. 82, no. 1, January 2000 (2000-01-01), GERMANY, pages 15 - 21, XP001179997 *

Also Published As

Publication number Publication date
WO2002036812A2 (en) 2002-05-10
EP1466289A2 (en) 2004-10-13
AU1487402A (en) 2002-05-15
WO2002036812A9 (en) 2003-01-23
CA2465661A1 (en) 2003-05-10
WO2002037202A2 (en) 2002-05-10
AU2002214871A1 (en) 2002-05-15

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