Benchmarking ortholog identification methods using functional genomics data

Table 3 General statistics of ortholog identification methods

Ortholog identification method	Orthologous groups	Protein pairs	Human proteins	Mouse/worm proteins	Average proteome size
Hs-Mm
BBH	-	12,817	12,817	12,817	12,817
INP	12,610	19,482	15,344	14,545	14,939
KOG	7,874	810,697	20,478	15,640	18,220
MCL	7,002	12,625	16,676*	14,833*	15,727*
PGT	-	85,848	17,302	15,729	16,534
Z1H	-	290,176	19,055	16,149	17,662
Hs-Ce
BBH	-	5,714	5,714	5,714	5,714
INP	4,135	17,011	9,282	5,784	7,327
KOG	4,155	155,387	12,249	9,812	10,963
MCL	4,705	9,749	7,028	5,774	6,370
PGT	-	49,979	12,499	8,370	10,228
Z1H	-	21,509	6,338	4,163	5,137

*Corrected for Ensembl-SpTrEMBL mapping. Ce, Caenorhabditis elegans; Hs, Homo sapiens; Mm, Mus musculus.

ISSN: 1474-760X