Global Alignment of Pairwise Protein Interaction Networks for Maximal Common Conserved Patterns

Table 3

A comparison of NetworkBLAST and HopeMap for yeast/fly.

Methods	Specificity (%) in GO	Specificity (%) in KO	Specificity (%) in INPARANOID	Number of GO categories enriched	Total conserved regions	Unique proteins in alignment graph
1. NetworkBLAST [15]
S. cerevisiae	94.87	N/A	100	54	117	348
D. melanogaster	84.62	N/A	100	43	117	256
2. HopeMap-bestPairs
S. cerevisiae	97.18	N/A	100	51	71	1314
D. melanogaster	76.06	N/A	100	34	71	1314
3. HopeMap—data from 1
S. cerevisiae	98.73	N/A	100	54	79	1645
D. melanogaster	78.48	N/A	100	39	79	1913
4. HopeMap-KO
S. cerevisiae	100.00	100	N/A	20	26	747
D. melanogaster	92.31	100	N/A	19	26	753