PrAS: Prediction of amidation sites using multiple feature extraction
Affiliation:
1. Universite de Lorraine, Laboratoire de Reactions et Genie des Procedes (UPR CNRS 3349), 1 rue Grandville, BP 20451 54001 Nancy, France;2. Department of Chemistry, University of Missouri-Columbia, Columbia, MO 65211, United States;3. Department of Chemistry, 1155 Union Circle #305070, University of North Texas, Denton, TX 76203-5017, United States;1. Department of Physics, Institute of Technical Education and Research, Siksha ‘O’ Anusandhan University, Bhubaneswar, 751 030 Odisha, India;2. Ravenshaw Junior College, Cuttack, Odisha, India
Abstract:
Amidation plays an important role in a variety of pathological processes and serious diseases like neural dysfunction and hypertension. However, identification of protein amidation sites through traditional experimental methods is time consuming and expensive. In this paper, we proposed a novel predictor for Prediction of Amidation Sites (PrAS), which is the first software package for academic users. The method incorporated four representative feature types, which are position-based features, physicochemical and biochemical properties features, predicted structure-based features and evolutionary information features. A novel feature selection method, positive contribution feature selection was proposed to optimize features. PrAS achieved AUC of 0.96, accuracy of 92.1%, sensitivity of 81.2%, specificity of 94.9% and MCC of 0.76 on the independent test set. PrAS is freely available at https://sourceforge.net/p/praspkg.
