Bridging Neuropeptidomics and Genomics with Bioinformatics:  Prediction of Mammalian Neuropeptide Prohormone Processing

• Published in: Journal of proteome research 2006-05, Vol.5 (5), p.1162-1167
• Main Authors: Amare, Andinet, Hummon, Amanda B, Southey, Bruce R, Zimmerman, Tyler A, Rodriguez-Zas, Sandra L, Sweedler, Jonathan V
• Format: Article
• Language: English
• Subjects: Algorithms; Amino Acid Sequence; Animals; Computational Biology - methods; Genomics - methods; Hormones - metabolism; Humans; Logistic Models; Mammals - metabolism; Models, Biological; Molecular Sequence Data; Neuropeptides - metabolism; Protein Precursors - metabolism; Protein Processing, Post-Translational
• ISSN: 1535-3893; 1535-3907
• DOI: 10.1021/pr0504541

Neuropeptides are an important class of cell to cell signaling molecules that are difficult to predict from genetic information because of their large number of post-translational modifications. The transition from prohormone genetic sequence information to the determination of the biologically active neuropeptides requires the identification of the cleaved basic sites, among the many possible cleavage sites, that exist in the prohormone. We report a binary logistic regression model trained on mammalian prohormones that is more sensitive than existing methods in predicting these processing sites, and demonstrate the application of this method to mammalian neuropeptidomic studies. By comparing the predictive abilities of a binary logistic model trained on molluscan prohormone cleavages with the reported model, we establish the need for phyla-specific models. Keywords: neuropeptide • prohormone processing prediction • binary logistic regression • statistical methods • mammalian prohormones