FI117988B - Informationsförvaltningssystem för biokemisk information - Google Patents

Informationsförvaltningssystem för biokemisk information Download PDF

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Publication number
FI117988B
FI117988B FI20031020A FI20031020A FI117988B FI 117988 B FI117988 B FI 117988B FI 20031020 A FI20031020 A FI 20031020A FI 20031020 A FI20031020 A FI 20031020A FI 117988 B FI117988 B FI 117988B
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FI
Finland
Prior art keywords
variable
management system
information management
data
information
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Application number
FI20031020A
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English (en)
Finnish (fi)
Other versions
FI20031020A0 (sv
FI20031020A (sv
Inventor
Pertteli Varpela
Meelis Kolmer
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Medicel Oy
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 Medicel Oy filed Critical Medicel Oy
Publication of FI20031020A0 publication Critical patent/FI20031020A0/sv
Priority to FI20031020A priority Critical patent/FI117988B/sv
Priority to FI20045040A priority patent/FI118102B/sv
Priority to EP04103059A priority patent/EP1503302A3/en
Priority to EP04103140A priority patent/EP1494156A3/en
Priority to PCT/FI2004/000424 priority patent/WO2005003999A1/en
Priority to JP2006516238A priority patent/JP2007520773A/ja
Priority to CA002531131A priority patent/CA2531131A1/en
Priority to AU2004254729A priority patent/AU2004254729A1/en
Priority to US10/883,036 priority patent/US7340485B2/en
Priority to US10/883,043 priority patent/US20050021877A1/en
Publication of FI20031020A publication Critical patent/FI20031020A/sv
Application granted granted Critical
Publication of FI117988B publication Critical patent/FI117988B/sv

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Classifications

    • G—PHYSICS
    • G06—COMPUTING; CALCULATING OR COUNTING
    • G06Q—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR ADMINISTRATIVE, COMMERCIAL, FINANCIAL, MANAGERIAL OR SUPERVISORY PURPOSES; SYSTEMS OR METHODS SPECIALLY ADAPTED FOR ADMINISTRATIVE, COMMERCIAL, FINANCIAL, MANAGERIAL OR SUPERVISORY PURPOSES, NOT OTHERWISE PROVIDED FOR
    • G06Q10/00—Administration; Management
    • G06Q10/10—Office automation; Time management
    • 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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • 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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • G16B5/10—Boolean models
    • 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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • G16B5/20—Probabilistic models
    • 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
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • G16B5/30—Dynamic-time models
    • 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
    • Y10S707/00—Data processing: database and file management or data structures
    • Y10S707/912—Applications of a database
    • 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
    • Y10S707/00—Data processing: database and file management or data structures
    • Y10S707/99941—Database schema or data structure
    • Y10S707/99942—Manipulating data structure, e.g. compression, compaction, compilation
    • 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
    • Y10S707/00—Data processing: database and file management or data structures
    • Y10S707/99941—Database schema or data structure
    • Y10S707/99944—Object-oriented database structure
    • Y10S707/99945—Object-oriented database structure processing

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  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Theoretical Computer Science (AREA)
  • Physiology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biophysics (AREA)
  • Molecular Biology (AREA)
  • Business, Economics & Management (AREA)
  • Human Resources & Organizations (AREA)
  • Strategic Management (AREA)
  • Entrepreneurship & Innovation (AREA)
  • Data Mining & Analysis (AREA)
  • Probability & Statistics with Applications (AREA)
  • Economics (AREA)
  • Marketing (AREA)
  • Operations Research (AREA)
  • Quality & Reliability (AREA)
  • Tourism & Hospitality (AREA)
  • General Business, Economics & Management (AREA)
  • General Physics & Mathematics (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Claims (12)

1. Informationsadministreringssystem för administrering av biologisk information (200), vilket informationsadministreringssystem omfattar en server ? (S) och en databas (DB), kännetecknat avatt den biologiska informa- 5 tionen (200) innehaller datamängder (202, 610, 620), av vilka var och en data-mängd omfattar: - en variabelvärdematris (614, 624), som innehaller variabelvärden anordnade som rader och kolumner; - en radbeskrivningslista (613, 623) pä ett variabelbeskrivningsspräk 10 (30) over variabelvärdematrisens rader; - en kolumnbeskrivningslista (612, 622) pa ett variabelbeskrivnings-spräk (30) över variabelvärdematrisens kolumner; - beskrivning (611, 621) av fasta dimensioner pa ett variabelbe-skrivningssprak (30) av en eller flera fasta dimensioner, vilka är gemensamma 15 för variabelvärdematrisens alla värden.
2. Informationsadministreringssystem enligt patentkrav 1, kä n n e-t e c k n a t av att: - variabelbeskrivningsspraket (30) omfattar variabelbeskrivningar, av vilka var och en omfattar ett eller flera par med ett nyckelord (32) och ett 20 namn (34); och .···. - informationsadministreringssystemet omfattar en tabell (38) med ,·)*; tillätna nyckelord. • *· • · ···'
3. Informationsadministreringssystem enligt patentkrav 2, k ä n n e - ΐ tecknat av att det omfattar en logik (300) för att utföra en syntaxkontroll för :*·]: 25 variabler som uttryckts pä nämnda variabelbeskrivningssprak.
··· • * **** 4. Informationsadministreringssystem enligt patentkrav 2 eller 3, kännetecknat av att det omfattar förenade variabeluttryck, av vilka vart • ‘ “ och ett omfattar tvä eller flera variabeluttryck, som har separerats med opera- törer och/eller funktioner. • · • · · *;./ 30
5. Informationsadministreringssystem enligt nägot av de föregäende • · *··* patentkraven, k ä n n e t e c k n a t av att det omfattar strukturerade beskriv- : ningar av biologiska stigar (700), vilka beskrivningar bestär av atminstone sti- :*·.· gar (212), biokemiska element (218), kopplingar (216) och interaktioner (222) sä att: ; 117988 32 - var och en stig (212) avser en eller flera kopplingar (216); - var och en koppling (216) förenar ett biokemiskt element (218) och en interaktion (222); och - var och en stig (212) avser ett specifikt läge (214).
6. Informationsadministreringssystem enligt patentkrav 5, k ä n n e - t e c k n a t av att var och en interaktion (222) avser en eller flera kinetiska lagar.
7. Informationsadminlstreringssystem enligt patentkrav 5 eller 6, k ä n n e t e c k n a t av att det omfattar medel för associering av en eller flera 10 pä förhand bestämda roller med respektive koppling, där rollen anger det bio-kemiska elementets (218) roll i interaktionen (222) och flera pa förhand bestämda roller omfattar ett substrat (840), en produkt (850), en aktivator (860) och en inhibitor (870).
8. Informationsadministreringssystem enligt nägot av patentkraven 15 5-7, k ä n n e t e c k n a t av att det omfattar medel för associering av en stoki- ometrisk koefficient med respektive koppling, där den stökiometriska koeffici-enten anger mängden producerade eller konsumerade molekyler i det bioke-miska elementet (218) i interaktionen (222).
9. Informationsadministreringssystem enligt nägot av patentkraven 20 5-8, kännetecknat av att det omfattar en användargränssnittslogik för ·»« att visa visualiseringar (800) av de strukturerade beskrivningarna av nämnda .·*·. biologiska stigar (700). ··· "1:
10. Informationsadministreringssystem enligt patentkrav 9, kän- :’· j n e t e c k n a t av att användargränssnittslogiken omfattar medel för att visa :***· 25 visualiseringar (800) av uppmätta eller pertuberade variabler, som har lokalise- ··· rats till biologiska stigars (700) biokemiska element (881), interaktioner (882) :·, och/eller kopplingar (883). • ·* • ί,,]ϊ
11. Informationsadministreringssystem enligt nägot av patentkraven .·,* : 5 -10, k ä n n e te c k n a t av att det omfattar stigkopplingar (720, 730) för att • · · 30 kombinera flera stigar (711 - 713) till en komplex stig. # · * · · . X
12. Informationsadministreringssystem enligt nägot av de föregäen- • · · ^1". de patentkraven, k ä n n e t e c k n a t av att det omfattar en användargräns- *: snittslogik för att visa dataspär (1102-1174) mellan besläktade datamängder.
FI20031020A 2003-07-04 2003-07-04 Informationsförvaltningssystem för biokemisk information FI117988B (sv)

Priority Applications (10)

Application Number Priority Date Filing Date Title
FI20031020A FI117988B (sv) 2003-07-04 2003-07-04 Informationsförvaltningssystem för biokemisk information
FI20045040A FI118102B (sv) 2003-07-04 2004-02-16 Informationskontrollsystem för kontroll av arbetsflöjden
EP04103059A EP1503302A3 (en) 2003-07-04 2004-06-30 Information management system for biochemical information
PCT/FI2004/000424 WO2005003999A1 (en) 2003-07-04 2004-07-02 Information management system for biochemical information
EP04103140A EP1494156A3 (en) 2003-07-04 2004-07-02 Information management system for managing workflows
JP2006516238A JP2007520773A (ja) 2003-07-04 2004-07-02 生化学情報のための情報管理システム
CA002531131A CA2531131A1 (en) 2003-07-04 2004-07-02 Information management system for biochemical information
AU2004254729A AU2004254729A1 (en) 2003-07-04 2004-07-02 Information management system for biochemical information
US10/883,036 US7340485B2 (en) 2003-07-04 2004-07-02 Information management system for biochemical information
US10/883,043 US20050021877A1 (en) 2003-07-04 2004-07-02 Information management system for managing workflows

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
FI20031020 2003-07-04
FI20031020A FI117988B (sv) 2003-07-04 2003-07-04 Informationsförvaltningssystem för biokemisk information

Publications (3)

Publication Number Publication Date
FI20031020A0 FI20031020A0 (sv) 2003-07-04
FI20031020A FI20031020A (sv) 2005-01-05
FI117988B true FI117988B (sv) 2007-05-15

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FI20031020A FI117988B (sv) 2003-07-04 2003-07-04 Informationsförvaltningssystem för biokemisk information

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US (1) US7340485B2 (sv)
EP (1) EP1503302A3 (sv)
FI (1) FI117988B (sv)

Families Citing this family (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AT412678B (de) * 2002-09-30 2005-05-25 Gerhard Dr Kranner Verfahren zur rechnergestützten erstellung von prognosen für operative systeme sowie system zur erstellung von prognosen für operative systeme
US7941433B2 (en) * 2006-01-20 2011-05-10 Glenbrook Associates, Inc. System and method for managing context-rich database
WO2008047432A1 (fr) 2006-10-19 2008-04-24 Fujitsu Limited Programme de recherche d'informations, supports d'enregistrement comprenant un tel programme enregistré, procédé de recherche d'informations, dispositif de recherche d'informations
JP4301285B2 (ja) * 2006-12-20 2009-07-22 ソニー株式会社 情報処理装置および方法、並びにプログラム
US8332209B2 (en) * 2007-04-24 2012-12-11 Zinovy D. Grinblat Method and system for text compression and decompression
WO2010004544A1 (en) * 2008-07-08 2010-01-14 Technion - Research & Development Foundation Ltd Decision support system for project managers and associated method

Family Cites Families (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5930154A (en) * 1995-01-17 1999-07-27 Intertech Ventures, Ltd. Computer-based system and methods for information storage, modeling and simulation of complex systems organized in discrete compartments in time and space
US6138130A (en) 1995-12-08 2000-10-24 Inventure Technologies, Inc. System and method for processing data in an electronic spreadsheet in accordance with a data type
US6678669B2 (en) * 1996-02-09 2004-01-13 Adeza Biomedical Corporation Method for selecting medical and biochemical diagnostic tests using neural network-related applications
US6553317B1 (en) 1997-03-05 2003-04-22 Incyte Pharmaceuticals, Inc. Relational database and system for storing information relating to biomolecular sequences and reagents
US6272468B1 (en) * 1997-12-01 2001-08-07 John Peter Melrose Clinical, heoristic, adminstrative, research & teaching (CHART) java-web-object information system for medical record management predicated on human body anatomy and physiology multi-media modeling
EP1163614A1 (en) * 1999-02-19 2001-12-19 Cellomics, Inc. Method and system for dynamic storage retrieval and analysis of experimental data with determined relationships
US20020187514A1 (en) * 1999-04-26 2002-12-12 Hao Chen Identification of molecular targets useful in treating substance abuse and addiction
AU2001229744A1 (en) * 2000-01-25 2001-08-07 Cellomics, Inc. Method and system for automated inference of physico-chemical interaction knowl edge
AU2001286880A1 (en) * 2000-11-28 2002-06-11 Physiome Sciences, Inc. System for modeling biological pathways
US6658429B2 (en) 2001-01-05 2003-12-02 Symyx Technologies, Inc. Laboratory database system and methods for combinatorial materials research
US20020194201A1 (en) * 2001-06-05 2002-12-19 Wilbanks John Thompson Systems, methods and computer program products for integrating biological/chemical databases to create an ontology network
US7856317B2 (en) * 2002-06-14 2010-12-21 Genomatica, Inc. Systems and methods for constructing genomic-based phenotypic models

Also Published As

Publication number Publication date
FI20031020A0 (sv) 2003-07-04
EP1503302A9 (en) 2005-08-03
US20050010372A1 (en) 2005-01-13
FI20031020A (sv) 2005-01-05
EP1503302A2 (en) 2005-02-02
EP1503302A3 (en) 2007-10-10
US7340485B2 (en) 2008-03-04

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