HMM successfully identified known peptide hormones. (A) Plot showing cumulative fraction of known peptide hormones (Ntotal = 77) (see Supplemental Table 1) identified among the top scoring 500 proteins; (solid line) aligned mammalian proteome as substrate; (gray line) human proteome as substrate. For the aligned proteome, 90% of known peptide hormones were found among the top 300 proteins. (B) Pie chart indicating percent composition of the top 300 proteins. Known peptide hormones, cytokines, growth factors, defensins, and other secreted proteins make up 61% of the proteins. Hypothetical and poorly annotated proteins make up 20% of the proteins and were submitted to further analysis to identify candidate novel peptide hormones.
