EPO-KB: a searchable knowledge base of biomarker to protein links | Zendy

Jonathan L. Lustgarten | Zendy; Chad Kimmel | Zendy; Henrik Ryberg | Zendy; William R. Hogan | Zendy

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EPO-KB: a searchable knowledge base of biomarker to protein links

Author(s) -

Jonathan L. Lustgarten,

Chad Kimmel,

Henrik Ryberg,

William R. Hogan

Publication year - 2008

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btn125

Subject(s) - knowledge base , gene ontology , computer science , ontology , computational biology , information retrieval , ionization , bioinformatics , gene , chemistry , world wide web , biochemistry , biology , gene expression , philosophy , epistemology , ion , organic chemistry

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.

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