Difference between revisions of "SDIWG:NCBC Software Classification NCIBI Examples"

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== NCIBI Software Classification & Metadata Examples ==
 
== NCIBI Software Classification & Metadata Examples ==
  
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=== Edgewarp ===
 
  
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* NCBC [http://bioontology.org/ontologies/SoftwareOntology/ Ontology Classification]<nowiki>: Modeling --> Algorithms --> Image Processing --> Registration </nowiki>
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* Description: Edgewarp 3D is a sophisticated workstation package for manipulation of 2D and 3D biomedical images and related data structures by a combination of landmark location, thin-plate spline, and image unwarping and averaging.
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=== MiMi:Michigan Molecular Interactions ===
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* Data Input: TBD
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* Data Output: TBD
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* NCBC [http://bioontology.org/ontologies/SoftwareOntology/ Ontology Classification]<nowiki>: Biotool --> Data Management -->Information retrieval, traversal and querying  </nowiki>
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* Implementation Language: C and C++ code and makes extensive use of SGI's OpenGL graphics interface. Communication with the user is by textual and graphical interfaces managed using TCL/TK.
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* Description: MiMI gathers data from well-known protein interaction databases and merges the information. Since these datasets often contain contradictory information, the merge is performed in such a way that all information is retained. A provenance model has been developed that tracks where each piece of data came from, and what processes have been performed upon it. A simple yet powerful user interface aids users in their queries. Thus, MiMI allows scientists to query all data, whether corroborative, or contradictory, and specify which sources to utilize
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* Platforms tested: SGI/IRIX
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* Data Input: MQuery
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* Version, Date, Stage: 3.2.7
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* Data Output: XML using MiMI's internal schema, PSI-MI format (version 2.5) and plain text
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* Authors: Fred Bookstein & TBD
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* Implementation Language: Timber native XML database
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* URL: http://vhp.med.umich.edu/edgewarpss.html
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* Platforms tested: Web and Cytoscape Browsers
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* Authors: Magesh Jayapandian, Adriane Chapman, V. Glenn Tarcea, Cong Yu, Aaron Elkiss, Angela Ianni, Bin Liu, Arnab Nandi, Carlos Santos, Philip Andrews, Brian Athey, David States and H. V. Jagadish
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* URL: http://mimi.ncibi.org/MiMI/home.jsp
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* Keywords: data integration, protein interactions

Latest revision as of 18:22, 6 March 2007

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NCIBI Software Classification & Metadata Examples

MiMi:Michigan Molecular Interactions

  • NCBC Ontology Classification: Biotool --> Data Management -->Information retrieval, traversal and querying
  • Description: MiMI gathers data from well-known protein interaction databases and merges the information. Since these datasets often contain contradictory information, the merge is performed in such a way that all information is retained. A provenance model has been developed that tracks where each piece of data came from, and what processes have been performed upon it. A simple yet powerful user interface aids users in their queries. Thus, MiMI allows scientists to query all data, whether corroborative, or contradictory, and specify which sources to utilize
  • Data Input: MQuery
  • Data Output: XML using MiMI's internal schema, PSI-MI format (version 2.5) and plain text
  • Implementation Language: Timber native XML database
  • Platforms tested: Web and Cytoscape Browsers
  • Authors: Magesh Jayapandian, Adriane Chapman, V. Glenn Tarcea, Cong Yu, Aaron Elkiss, Angela Ianni, Bin Liu, Arnab Nandi, Carlos Santos, Philip Andrews, Brian Athey, David States and H. V. Jagadish
  • URL: http://mimi.ncibi.org/MiMI/home.jsp
  • Keywords: data integration, protein interactions
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