PIR and caBIG

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PIR and caBIG
Baris E. Suzek, Hongzhan Huang, Hsing-Kuo Hua,
Peter McGarvey and Cathy H. Wu Protein
Information Resource, Georgetown University,
Washington, DC 20007
The cancer Biomedical Informatics Grid, or
caBIG, is a voluntary network or grid connecting
individuals and institutions to enable the
sharing of data and tools, creating a World Wide
Web of cancer research.
https//cabig.nci.nih.gov/
The goal is to speed the delivery of innovative
approaches for the prevention and treatment of
cancer. The infrastructure and tools created by
caBIG also have broad utility outside the cancer
community. caBIG is being developed under the
leadership of the National Cancer Institute's
Center for Bioinformatics.
Grid-Enablement of Protein Information Resource
(gridPIR) PIR developed one of four reference
projects for the first year of caBIG. The
initial development phase of gridPIR has been
completed and the UniProKB data is currently
available and searchable on the first release of
the caGrid.
Enterprise Vocabulary System Annotations
Common Data Elements
http//cagrid-browser.nci.nih.gov/
Object Model
caBIG Query Language
Search proteins for a gene using caBIG Query
language
Development Process Flow
System Overview
GeneConnect GeneConnect is an identifier mapping
service designed to facilitate data integration
and semantic interoperability.
Proposed Identifier Mappings
SEED SEED (http//theseed.uchicago.edu/FIG/index.c
gi) is a powerful tool for the analysis and
annotation of genomes. The University of Chicago
and Argonne National Labs have modified SEED for
caBIG to better serve the cancer research
community. PIR, as caBIG adopter for this
project, worked with the developers to help
design and test the SEED modifications.
PIR is caBIG adopter for this project, working
with the developers to help design and test the
GeneConnect software.

• Vocabulary and Common Data Elements (VCDE)
  Workspace Participation
• Mentoring and reviewing caBIG funded software
  projects to ensure caBIG compatibility guidelines
  are met
• Development and/or review of data and vocabulary
  standards to enhance semantic interoperability

Object Model
SEED Web Interface
System Overview
Contact pirmail_at_georgetown.edu
http//pir.georgetown.edu/pirwww/cabig.shtml