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PSSM - Suc: accurately predicting succinylation using position specific scoring matrix into bigram for feature extraction

Dehzangi, A. and López, Y. and Lal, S.P. and Taherzadeh, G. and Mchaelson, J. and Sattar, A. and Tsunoda, T. and Sharma, Alokanand (2017) PSSM - Suc: accurately predicting succinylation using position specific scoring matrix into bigram for feature extraction. Journal of Theoretical Biology, 425 . pp. 97-102. ISSN 0022-5193

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Abstract

Post-translational modification (PTM) is a covalent and enzymatic modification of proteins, which contributes to diversify the proteome. Despite many reported PTMs with essential roles in cellular functioning, lysine succinylation has emerged as a subject of particular interest. Because its experimental identification remains a costly and time-consuming process, computational predictors have been recently proposed for tackling this important issue. However, the performance of current predictors is still very limited. In this paper, we propose a new predictor called PSSM-Suc which employs evolutionary information of amino acids for predicting succinylated lysine residues. Here we described each lysine residue in terms of profile bigrams extracted from position specific scoring matrices. We compared the performance of PSSM-Suc to that of existing predictors using a widely used benchmark dataset. PSSM-Suc showed a significant improvement in performance over state-of-the-art predictors. Its sensitivity, accuracy and Matthews correlation coefficient were 0.8159, 0.8199 and 0.6396, respectively.

Item Type: Journal Article
Uncontrolled Keywords: Amino acids; Protein sequences; Succinylation prediction
Subjects: Q Science > Q Science (General)
Divisions: Faculty of Science, Technology and Environment (FSTE) > School of Engineering and Physics
Depositing User: USP RSC Assistant
Date Deposited: 15 Jan 2018 16:55
Last Modified: 15 Jan 2018 16:55
URI: http://repository.usp.ac.fj/id/eprint/10513
UNSPECIFIED

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