Novel metrics for evaluating the functional coherence of protein groups via protein semantic network.
We present the metrics for assessing overall functional coherence of a group of proteins based on associated biomedical literature. A probabilistic topic model is applied to extract biologic concepts from a corpus of protein-related biomedical literature. Bipartite protein semantic networks are constructed, so that the functional coherence of a protein group can be evaluated with metrics that measure the closeness and strength of connectivity of the proteins in the network.
Zheng
Bin
B
Department of Biostatistics, Bioinformatics and Epidemiology, 135 Cannon Street, Charleston, South Carolina 29425, USA.
Lu
Xinghua
X
D000818:Animals; D019295:Computational Biology / Q000379:methods*; D006801:Humans; D011506:Proteins / Q000737:chemistry* / Q000502:physiology*; D012660:Semantics
D011506:Proteins