Quantifying Protein Function Specificity in the Gene Ontology | Zendy

Brenton Louie | Zendy; Silas Bergen | Zendy; Roger Higdon | Zendy; Eugene Kolker | Zendy

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Quantifying Protein Function Specificity in the Gene Ontology

Author(s) -

Brenton Louie,

Silas Bergen,

Roger Higdon,

Eugene Kolker

Publication year - 2010

Publication title -

standards in genomic sciences

Language(s) - English

Resource type - Journals

ISSN - 1944-3277

DOI - 10.4056/sigs.561626

Subject(s) - function (biology) , gene ontology , similarity (geometry) , biology , computational biology , ontology , ancestor , gene , computer science , genetics , artificial intelligence , gene expression , epistemology , geography , philosophy , image (mathematics) , archaeology

Quantitative or numerical metrics of protein function specificity made possible by the Gene Ontology are useful in that they enable development of distance or similarity measures between protein functions. Here we describe how to calculate four measures of function specificity for GO terms: 1) number of ancestor terms; 2) number of offspring terms; 3) proportion of terms; and 4) Information Content (IC). We discuss the relationship between the metrics and the strengths and weaknesses of each.

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