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WO2005036369A3 - Database for microbial investigations - Google Patents

Database for microbial investigations Download PDF

Info

Publication number
WO2005036369A3
WO2005036369A3 PCT/US2004/033742 US2004033742W WO2005036369A3 WO 2005036369 A3 WO2005036369 A3 WO 2005036369A3 US 2004033742 W US2004033742 W US 2004033742W WO 2005036369 A3 WO2005036369 A3 WO 2005036369A3
Authority
WO
WIPO (PCT)
Prior art keywords
pathogens
diseases
symptoms
information
database
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/US2004/033742
Other languages
French (fr)
Other versions
WO2005036369A2 (en
Inventor
Kumar Hari
John Mcneil
Dave Ecker
Neill White
Vivek Samant
Vanessa Zapp
Alan Goates
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.)
Ionis Pharmaceuticals Inc
Original Assignee
Isis Pharmaceuticals 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 Isis Pharmaceuticals Inc filed Critical Isis Pharmaceuticals Inc
Publication of WO2005036369A2 publication Critical patent/WO2005036369A2/en
Anticipated expiration legal-status Critical
Publication of WO2005036369A3 publication Critical patent/WO2005036369A3/en
Ceased legal-status Critical Current

Links

Classifications

    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H50/00—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics
    • G16H50/70—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for mining of medical data, e.g. analysing previous cases of other patients
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H50/00—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics
    • G16H50/80—ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for detecting, monitoring or modelling epidemics or pandemics, e.g. flu
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16H—HEALTHCARE INFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR THE HANDLING OR PROCESSING OF MEDICAL OR HEALTHCARE DATA
    • G16H70/00—ICT specially adapted for the handling or processing of medical references
    • G16H70/60—ICT specially adapted for the handling or processing of medical references relating to pathologies
    • 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
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

Landscapes

  • Engineering & Computer Science (AREA)
  • Public Health (AREA)
  • Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • General Health & Medical Sciences (AREA)
  • Primary Health Care (AREA)
  • Epidemiology (AREA)
  • Data Mining & Analysis (AREA)
  • Biomedical Technology (AREA)
  • Databases & Information Systems (AREA)
  • Pathology (AREA)
  • Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
  • Management, Administration, Business Operations System, And Electronic Commerce (AREA)

Abstract

A centralized system provides for locating, storing and providing microbial-related information, including pathogens, diseases, symptoms, genetic information, and related documentation. A centralized database relates pathogens to diseases that they cause, symptoms of those diseases, genetic information about the pathogens, and documentation that is associated with any of the above. By analyzing the stored data, the system recognizes duplicated information, for example a pathogen present in the database twice, each time under a different taxonomical name, and creates a link from one instance of the pathogen to the other. The system additionally identifies common genes and sequences among related organisms. A researcher uses the system to perform investigations. For example, a medical doctor can enter patient symptoms to obtain a list of consistent diseases and associated pathogens. The system also tracks the progression of an outbreak and identifies similar occurrences by searching the World Wide Web and reporting results.
PCT/US2004/033742 2003-10-09 2004-10-12 Database for microbial investigations Ceased WO2005036369A2 (en)

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US50991103P 2003-10-09 2003-10-09
US60/509,911 2003-10-09
US59840804P 2004-08-02 2004-08-02
US60/598,408 2004-08-02

Publications (2)

Publication Number Publication Date
WO2005036369A2 WO2005036369A2 (en) 2005-04-21
WO2005036369A3 true WO2005036369A3 (en) 2006-07-06

Family

ID=34437312

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2004/033742 Ceased WO2005036369A2 (en) 2003-10-09 2004-10-12 Database for microbial investigations

Country Status (1)

Country Link
WO (1) WO2005036369A2 (en)

Families Citing this family (43)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US7666588B2 (en) 2001-03-02 2010-02-23 Ibis Biosciences, Inc. Methods for rapid forensic analysis of mitochondrial DNA and characterization of mitochondrial DNA heteroplasmy
US20030027135A1 (en) 2001-03-02 2003-02-06 Ecker David J. Method for rapid detection and identification of bioagents
WO2004060278A2 (en) 2002-12-06 2004-07-22 Isis Pharmaceuticals, Inc. Methods for rapid identification of pathogens in humans and animals
US7226739B2 (en) 2001-03-02 2007-06-05 Isis Pharmaceuticals, Inc Methods for rapid detection and identification of bioagents in epidemiological and forensic investigations
US20040121311A1 (en) 2002-12-06 2004-06-24 Ecker David J. Methods for rapid detection and identification of bioagents in livestock
US7217510B2 (en) 2001-06-26 2007-05-15 Isis Pharmaceuticals, Inc. Methods for providing bacterial bioagent characterizing information
US8073627B2 (en) 2001-06-26 2011-12-06 Ibis Biosciences, Inc. System for indentification of pathogens
US8046171B2 (en) 2003-04-18 2011-10-25 Ibis Biosciences, Inc. Methods and apparatus for genetic evaluation
US8057993B2 (en) 2003-04-26 2011-11-15 Ibis Biosciences, Inc. Methods for identification of coronaviruses
US7964343B2 (en) 2003-05-13 2011-06-21 Ibis Biosciences, Inc. Method for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture
US8158354B2 (en) 2003-05-13 2012-04-17 Ibis Biosciences, Inc. Methods for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture
US8097416B2 (en) 2003-09-11 2012-01-17 Ibis Biosciences, Inc. Methods for identification of sepsis-causing bacteria
US8242254B2 (en) 2003-09-11 2012-08-14 Ibis Biosciences, Inc. Compositions for use in identification of bacteria
US8546082B2 (en) 2003-09-11 2013-10-01 Ibis Biosciences, Inc. Methods for identification of sepsis-causing bacteria
US8163895B2 (en) 2003-12-05 2012-04-24 Ibis Biosciences, Inc. Compositions for use in identification of orthopoxviruses
US7666592B2 (en) 2004-02-18 2010-02-23 Ibis Biosciences, Inc. Methods for concurrent identification and quantification of an unknown bioagent
US8119336B2 (en) 2004-03-03 2012-02-21 Ibis Biosciences, Inc. Compositions for use in identification of alphaviruses
US7714275B2 (en) 2004-05-24 2010-05-11 Ibis Biosciences, Inc. Mass spectrometry with selective ion filtration by digital thresholding
US20050266411A1 (en) 2004-05-25 2005-12-01 Hofstadler Steven A Methods for rapid forensic analysis of mitochondrial DNA
US7811753B2 (en) 2004-07-14 2010-10-12 Ibis Biosciences, Inc. Methods for repairing degraded DNA
US20060205040A1 (en) 2005-03-03 2006-09-14 Rangarajan Sampath Compositions for use in identification of adventitious viruses
US8084207B2 (en) 2005-03-03 2011-12-27 Ibis Bioscience, Inc. Compositions for use in identification of papillomavirus
US8026084B2 (en) 2005-07-21 2011-09-27 Ibis Biosciences, Inc. Methods for rapid identification and quantitation of nucleic acid variants
WO2008143627A2 (en) 2006-09-14 2008-11-27 Ibis Biosciences, Inc. Targeted whole genome amplification method for identification of pathogens
US8871471B2 (en) 2007-02-23 2014-10-28 Ibis Biosciences, Inc. Methods for rapid forensic DNA analysis
US9598724B2 (en) 2007-06-01 2017-03-21 Ibis Biosciences, Inc. Methods and compositions for multiple displacement amplification of nucleic acids
US8148163B2 (en) 2008-09-16 2012-04-03 Ibis Biosciences, Inc. Sample processing units, systems, and related methods
US8534447B2 (en) 2008-09-16 2013-09-17 Ibis Biosciences, Inc. Microplate handling systems and related computer program products and methods
WO2010033599A2 (en) 2008-09-16 2010-03-25 Ibis Biosciences, Inc. Mixing cartridges, mixing stations, and related kits, systems, and methods
JP5413185B2 (en) * 2008-12-25 2014-02-12 Ｊｓｒ株式会社 Negative radiation sensitive composition, cured pattern forming method and cured pattern
WO2010093943A1 (en) 2009-02-12 2010-08-19 Ibis Biosciences, Inc. Ionization probe assemblies
WO2010114842A1 (en) 2009-03-30 2010-10-07 Ibis Biosciences, Inc. Bioagent detection systems, devices, and methods
US9194877B2 (en) 2009-07-17 2015-11-24 Ibis Biosciences, Inc. Systems for bioagent indentification
US8950604B2 (en) 2009-07-17 2015-02-10 Ibis Biosciences, Inc. Lift and mount apparatus
WO2011014811A1 (en) 2009-07-31 2011-02-03 Ibis Biosciences, Inc. Capture primers and capture sequence linked solid supports for molecular diagnostic tests
ES2628739T3 (en) 2009-10-15 2017-08-03 Ibis Biosciences, Inc. Multiple displacement amplification
EP2545183B1 (en) 2010-03-10 2017-04-19 Ibis Biosciences, Inc. Production of single-stranded circular nucleic acid
US9068017B2 (en) 2010-04-08 2015-06-30 Ibis Biosciences, Inc. Compositions and methods for inhibiting terminal transferase activity
US20150031038A1 (en) 2011-09-06 2015-01-29 Ibis Biosciences, Inc. Sample preparation methods
US9970061B2 (en) 2011-12-27 2018-05-15 Ibis Biosciences, Inc. Bioagent detection oligonucleotides
CN104937390B (en) 2012-09-26 2018-09-21 艾比斯生物科学公司 swab interface for microfluidic device
US10649982B2 (en) 2017-11-09 2020-05-12 Fry Laboratories, LLC Automated database updating and curation
CN119943165A (en) * 2024-05-10 2025-05-06 中国人民解放军军事科学院军事医学研究院 A pathogenic microorganism database and its construction method

Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6389428B1 (en) * 1998-05-04 2002-05-14 Incyte Pharmaceuticals, Inc. System and method for a precompiled database for biomolecular sequence information
US6553317B1 (en) * 1997-03-05 2003-04-22 Incyte Pharmaceuticals, Inc. Relational database and system for storing information relating to biomolecular sequences and reagents
US20030082539A1 (en) * 2001-06-26 2003-05-01 Ecker David J. Secondary structure defining database and methods for determining identity and geographic origin of an unknown bioagent thereby
US20030187615A1 (en) * 2002-03-26 2003-10-02 John Epler Methods and apparatus for early detection of health-related events in a population
US20050065813A1 (en) * 2003-03-11 2005-03-24 Mishelevich David J. Online medical evaluation system

Patent Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6553317B1 (en) * 1997-03-05 2003-04-22 Incyte Pharmaceuticals, Inc. Relational database and system for storing information relating to biomolecular sequences and reagents
US6389428B1 (en) * 1998-05-04 2002-05-14 Incyte Pharmaceuticals, Inc. System and method for a precompiled database for biomolecular sequence information
US20030082539A1 (en) * 2001-06-26 2003-05-01 Ecker David J. Secondary structure defining database and methods for determining identity and geographic origin of an unknown bioagent thereby
US20030187615A1 (en) * 2002-03-26 2003-10-02 John Epler Methods and apparatus for early detection of health-related events in a population
US20050065813A1 (en) * 2003-03-11 2005-03-24 Mishelevich David J. Online medical evaluation system

Also Published As

Publication number Publication date
WO2005036369A2 (en) 2005-04-21

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