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WO2000072182A3 - Methods and system for amplitude normalization and selection of data peaks - Google Patents

Methods and system for amplitude normalization and selection of data peaks Download PDF

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Publication number
WO2000072182A3
WO2000072182A3 PCT/US2000/014159 US0014159W WO0072182A3 WO 2000072182 A3 WO2000072182 A3 WO 2000072182A3 US 0014159 W US0014159 W US 0014159W WO 0072182 A3 WO0072182 A3 WO 0072182A3
Authority
WO
WIPO (PCT)
Prior art keywords
data
methods
experimental
experimental data
biotechnology
Prior art date
Legal status (The legal status 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 status listed.)
Ceased
Application number
PCT/US2000/014159
Other languages
French (fr)
Other versions
WO2000072182A2 (en
Inventor
Dennis R Grace
Jayson T Durham
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Digital Gene Technologies Inc
Original Assignee
Digital Gene Technologies 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 Digital Gene Technologies Inc filed Critical Digital Gene Technologies Inc
Priority to JP2000620505A priority Critical patent/JP2003500662A/en
Priority to AU51562/00A priority patent/AU5156200A/en
Priority to EP00936213A priority patent/EP1190365A2/en
Priority to CA002375180A priority patent/CA2375180A1/en
Publication of WO2000072182A2 publication Critical patent/WO2000072182A2/en
Publication of WO2000072182A3 publication Critical patent/WO2000072182A3/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

Links

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
    • 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

Landscapes

  • Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biophysics (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • Molecular Biology (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Investigating, Analyzing Materials By Fluorescence Or Luminescence (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Spectrometry And Color Measurement (AREA)
  • Complex Calculations (AREA)

Abstract

Methods and system for amplitude normalization and selection of data peaks from experimental data including polynucleotide data such as DNA, cDNA or mRNA from biotechnology experiments. The methods and systems include removing spectral overlap, spatially detrending and normalizing a multi-component data signal into experimental data from a desired experiment (e.g., biotechnology data). Standard data sizes are determined and data clutter is rejected for filtered experimental data. Data sizes are calibrated and error removed from experimental data. Data stutter is removed and the number of data values is reduced. The methods and system help automate the processing of experimental data to eliminate or reduce errors and leave processed experimental data in a format suitable for visual display, comparative analysis and other analysis. The methods and systems may help reduce or eliminate inconsistencies in processing experimental data that typically lead to unreliable or erroneous results. The methods and system of the present invention may be used to refine processing of biotechnology data with new techniques that can be used for bioinformatics and for other types of experimental data that are visual displayed (e.g., telecommunications data, electrical data for electrical devices, optical data, physical data, or other data).
PCT/US2000/014159 1999-05-25 2000-05-23 Methods and system for amplitude normalization and selection of data peaks Ceased WO2000072182A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
JP2000620505A JP2003500662A (en) 1999-05-25 2000-05-23 Method and system for amplitude normalization and data peak selection
AU51562/00A AU5156200A (en) 1999-05-25 2000-05-23 Methods and system for amplitude normalization and selection of data peaks
EP00936213A EP1190365A2 (en) 1999-05-25 2000-05-23 Methods and system for amplitude normalization and selection of data peaks
CA002375180A CA2375180A1 (en) 1999-05-25 2000-05-23 Methods and system for amplitude normalization and selection of data peaks

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US31869999A 1999-05-25 1999-05-25
US09/318,699 1999-05-25

Publications (2)

Publication Number Publication Date
WO2000072182A2 WO2000072182A2 (en) 2000-11-30
WO2000072182A3 true WO2000072182A3 (en) 2001-03-15

Family

ID=23239245

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2000/014159 Ceased WO2000072182A2 (en) 1999-05-25 2000-05-23 Methods and system for amplitude normalization and selection of data peaks

Country Status (5)

Country Link
EP (1) EP1190365A2 (en)
JP (1) JP2003500662A (en)
AU (1) AU5156200A (en)
CA (1) CA2375180A1 (en)
WO (1) WO2000072182A2 (en)

Families Citing this family (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7492372B2 (en) * 2006-02-21 2009-02-17 Bio-Rad Laboratories, Inc. Overlap density (OD) heatmaps and consensus data displays
GB201102385D0 (en) 2011-02-10 2011-03-30 Biocule Scotland Ltd Two-dimensional gel electrophoresis apparatus and method
CN118624532B (en) * 2024-08-09 2024-11-05 成都莱普科技股份有限公司 Laser transmission power measurement method, device, electronic device and storage medium

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1998000708A1 (en) * 1996-06-27 1998-01-08 Visible Genetics Inc. Method and apparatus for alignment of signals for use in dna base-calling
US5853979A (en) * 1995-06-30 1998-12-29 Visible Genetics Inc. Method and system for DNA sequence determination and mutation detection with reference to a standard
WO2000022173A1 (en) * 1998-10-15 2000-04-20 Princeton University Quantitative analysis of hybridization patterns and intensities in oligonucleotide arrays

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5853979A (en) * 1995-06-30 1998-12-29 Visible Genetics Inc. Method and system for DNA sequence determination and mutation detection with reference to a standard
WO1998000708A1 (en) * 1996-06-27 1998-01-08 Visible Genetics Inc. Method and apparatus for alignment of signals for use in dna base-calling
WO2000022173A1 (en) * 1998-10-15 2000-04-20 Princeton University Quantitative analysis of hybridization patterns and intensities in oligonucleotide arrays

Non-Patent Citations (3)

* Cited by examiner, † Cited by third party
Title
GIDDINGS M C ET AL: "AN ADAPTIVE, OBJECT ORIENTED STRATEGY FOR BASE CALLING IN DNA SEQUENCE ANALYSIS", NUCLEIC ACIDS RESEARCH,OXFORD UNIVERSITY PRESS, SURREY,GB, vol. 21, no. 19, 1993, pages 4530 - 4540, XP000919267, ISSN: 0305-1048 *
LUCKE L ET AL: "A DIGIT-SERIAL ARCHITECTURE FOR GRAY-SCALE MORPHOLOGICAL FILTERING", IEEE TRANSACTIONS ON IMAGE PROCESSING,US,IEEE INC. NEW YORK, vol. 4, no. 3, 1 March 1995 (1995-03-01), pages 387 - 391, XP000501913, ISSN: 1057-7149 *
VERBEEK P W ET AL: "2-D ADAPTIVE SMOOTHING BY 3-D DISTANCE TRANSFORMATION", PATTERN RECOGNITION LETTERS,NL,NORTH-HOLLAND PUBL. AMSTERDAM, vol. 9, no. 1, 1989, pages 53 - 65, XP000098457, ISSN: 0167-8655 *

Also Published As

Publication number Publication date
AU5156200A (en) 2000-12-12
JP2003500662A (en) 2003-01-07
EP1190365A2 (en) 2002-03-27
CA2375180A1 (en) 2000-11-30
WO2000072182A2 (en) 2000-11-30

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