IJMS, Vol. 18, Pages 1838: IonchanPred 2.0: A Tool to Predict Ion Channels and Their Types

IJMS, Vol. 18, Pages 1838: IonchanPred 2.0: A Tool to Predict Ion Channels and Their Types

International Journal of Molecular Sciences doi: 10.3390/ijms18091838

Authors: Ya-Wei Zhao Zhen-Dong Su Wuritu Yang Hao Lin Wei Chen Hua Tang

Ion channels (IC) are ion-permeable protein pores located in the lipid membranes of all cells. Different ion channels have unique functions in different biological processes. Due to the rapid development of high-throughput mass spectrometry, proteomic data are rapidly accumulating and provide us an opportunity to systematically investigate and predict ion channels and their types. In this paper, we constructed a support vector machine (SVM)-based model to quickly predict ion channels and their types. By considering the residue sequence information and their physicochemical properties, a novel feature-extracted method which combined dipeptide composition with the physicochemical correlation between two residues was employed. A feature selection strategy was used to improve the performance of the model. Comparison results of in jackknife cross-validation demonstrated that our method was superior to other methods for predicting ion channels and their types. Based on the model, we built a web server called IonchanPred which can be freely accessed from http://ift.tt/2w7uLZE.

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