simDEF: definition-based semantic similarity measure of gene ontology terms for functional similarity analysis of genes | Zendy

Ahmad Pesaranghader | Zendy; Stan Matwin | Zendy; Marina Sokolova | Zendy; Robert G. Beiko | Zendy

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simDEF: definition-based semantic similarity measure of gene ontology terms for functional similarity analysis of genes

Author(s) -

Ahmad Pesaranghader,

Stan Matwin,

Marina Sokolova,

Robert G. Beiko

Publication year - 2015

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/btv755

Subject(s) - semantic similarity , computer science , similarity (geometry) , similarity measure , cosine similarity , correlation , measure (data warehouse) , data mining , artificial intelligence , natural language processing , information retrieval , theoretical computer science , mathematics , pattern recognition (psychology) , image (mathematics) , geometry

Measures of protein functional similarity are essential tools for function prediction, evaluation of protein-protein interactions (PPIs) and other applications. Several existing methods perform comparisons between proteins based on the semantic similarity of their GO terms; however, these measures are highly sensitive to modifications in the topological structure of GO, tend to be focused on specific analytical tasks and concentrate on the GO terms themselves rather than considering their textual definitions.

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