EPO-KB: a searchable knowledge base of biomarker to protein links.
The knowledge base EPO-KB (Empirical Proteomic Ontology Knowledge Base) is based on an OWL ontology that represents current knowledge linking mass-to-charge (m/z) ratios to proteins on multiple platforms including Matrix Assisted Laser/Desorption Ionization (MALDI) and Surface Enhanced Laser/Desorption Ionization (SELDI)--Time of Flight (TOF). At present, it contains information on m/z ratio to protein links that were extracted from 120 published research papers. It has a web interface that allows researchers to query and retrieve putative proteins that correspond to a user-specified m/z ratio. EPO-KB also allows automated entry of additional m/z ratio to protein links and is expandable to the addition of gene to protein and protein to disease links.


BACKGROUND
http://www.dbmi.pitt.edu/EPO-KB
Lustgarten
Jonathan L
JL
Department of Biomedical Informatics, University of Pittsburgh, 200 Meyran Ave M-183 Parkvale, Pittsburgh, PA 15260, USA. JLL47@pitt.edu
Kimmel
Chad
C
Ryberg
Henrik
H
Hogan
William
W
D000465:Algorithms; D001185:Artificial Intelligence; D015415:Biomarkers; D003628:Database Management Systems; D030562:Databases, Protein; D016247:Information Storage and Retrieval / Q000379:methods*; D010363:Pattern Recognition, Automated / Q000379:methods*; D011506:Proteins / Q000737:chemistry*; D012984:Software; D014584:User-Computer Interface
D015415:Biomarkers; D011506:Proteins