In search of protein locations

Authors:
Catherine Blake;Wu Zheng
Affiliations:
University of Illinois, Urbana Champaign, IL;University of Illinois, Urbana Champaign, IL
Venue:
BioNLP '11 Proceedings of BioNLP 2011 Workshop
Year:
2011

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Abstract

We present a bootstrapping approach to infer new proteins, locations and protein-location pairs by combining UniProt seed protein-location pairs with dependency paths from a large collection of text. Of the top 20 system proposed protein-location pairs, 18 were in UniProt or supported by online evidence. Interestingly, 3 of the top 20 locations identified by the system were in the UniProt description, but missing from the formal ontology.