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OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target
(OMIT) for microRNA-target gene interaction data
#MMPMID27175225
Huang J
; Gutierrez F
; Strachan HJ
; Dou D
; Huang W
; Smith B
; Blake JA
; Eilbeck K
; Natale DA
; Lin Y
; Wu B
; Silva Nd
; Wang X
; Liu Z
; Borchert GM
; Tan M
; Ruttenberg A
J Biomed Semantics
2016[]; 7
(?): 25
PMID27175225
show ga
As a special class of non-coding RNAs (ncRNAs), microRNAs (miRNAs) perform
important roles in numerous biological and pathological processes. The
realization of miRNA functions depends largely on how miRNAs regulate specific
target genes. It is therefore critical to identify, analyze, and cross-reference
miRNA-target interactions to better explore and delineate miRNA functions.
Semantic technologies can help in this regard. We previously developed a miRNA
domain-specific application ontology, Ontology for MIcroRNA Target (OMIT), whose
goal was to serve as a foundation for semantic annotation, data integration, and
semantic search in the miRNA field. In this paper we describe our continuing
effort to develop the OMIT, and demonstrate its use within a semantic search
system, OmniSearch, designed to facilitate knowledge capture of miRNA-target
interaction data. Important changes in the current version OMIT are summarized
as: (1) following a modularized ontology design (with 2559 terms imported from
the NCRO ontology); (2) encoding all 1884 human miRNAs (vs. 300 in previous
versions); and (3) setting up a GitHub project site along with an issue tracker
for more effective community collaboration on the ontology development. The OMIT
ontology is free and open to all users, accessible at:
http://purl.obolibrary.org/obo/omit.owl. The OmniSearch system is also free and
open to all users, accessible at:
http://omnisearch.soc.southalabama.edu/index.php/Software.
free
free
free
