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2016 ; 2016
(ä): ä Nephropedia Template TP
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BELTracker: evidence sentence retrieval for BEL statements
#MMPMID27173525
Rastegar-Mojarad M
; Komandur Elayavilli R
; Liu H
Database (Oxford)
2016[]; 2016
(ä): ä PMID27173525
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Biological expression language (BEL) is one of the main formal representation
models of biological networks. The primary source of information for curating
biological networks in BEL representation has been literature. It remains a
challenge to identify relevant articles and the corresponding evidence statements
for curating and validating BEL statements. In this paper, we describe
BELTracker, a tool used to retrieve and rank evidence sentences from PubMed
abstracts and full-text articles for a given BEL statement (per the 2015 task
requirements of BioCreative V BEL Task). The system is comprised of three main
components, (i) translation of a given BEL statement to an information retrieval
(IR) query, (ii) retrieval of relevant PubMed citations and (iii) finding and
ranking the evidence sentences in those citations. BELTracker uses a combination
of multiple approaches based on traditional IR, machine learning, and heuristics
to accomplish the task. The system identified and ranked at least one fully
relevant evidence sentence in the top 10 retrieved sentences for 72 out of 97 BEL
statements in the test set. BELTracker achieved a precision of 0.392, 0.532 and
0.615 when evaluated with three criteria, namely full, relaxed and context
criteria, respectively, by the task organizers. Our team at Mayo Clinic was the
only participant in this task. BELTracker is available as a RESTful API and is
available for public use.Database URL:
http://www.openbionlp.org:8080/BelTracker/finder/Given_BEL_Statement.