A novel method for predicting post-translational modifications on serine and threonine sites by using site-modification network profiles

Molecular BioSystems
Minghui WangXiaoyi Xu

Abstract

Post-translational modifications (PTMs) regulate many aspects of biological behaviours including protein-protein interactions and cellular processes. Identification of PTM sites is helpful for understanding the PTM regulatory mechanisms. The PTMs on serine and threonine sites include phosphorylation, O-linked glycosylation and acetylation. Although a lot of computational approaches have been developed for PTM site prediction, currently most of them generate the predictive models by employing only local sequence information and few of them consider the relationship between different PTMs. In this paper, by adopting the site-modification network (SMNet) profiles that efficiently incorporate in situ PTM information, we develop a novel method to predict PTM sites on serine and threonine. PTM data are collected from various PTM databases and the SMNet is built to reflect the relationship between multiple PTMs, from which SMNet profiles are extracted to train predictive models based on SVM. Performance analysis of the SVM models shows that the SMNet profiles play an important role in accurately predicting PTM sites on serine and threonine. Furthermore, the proposed method is compared with existing PTM prediction approaches. The resul...Continue Reading

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Citations

Feb 7, 2016·The Journal of Infection·Jesús F Bermejo-MartinEduardo Tamayo
Sep 4, 2015·International Journal of Molecular Sciences·Fei XuQingzhu Zhang
Apr 12, 2015·Experimental Neurology·Jin Hwan LeeShan Ping Yu
Apr 12, 2016·BioMed Research International·Hamid D IsmailDukka B Kc
Apr 8, 2021·Database : the Journal of Biological Databases and Curation·Shahin Ramazi, Javad Zahiri

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