Prediction of G Protein-Coupled Receptors with SVM-Prot Features and Random Forest

• Published in: Scientifica (Cairo) Vol. 2016; no. 2016; pp. 1 - 10
• Main Authors: Liao, Zhijun, Zou, Quan, Ju, Ying
• Format: Journal Article
• Language: English
• Published: Cairo, Egypt Hindawi Publishing Corporation 01.01.2016; Wiley
• ISSN: 2090-908X; 2090-908X
• DOI: 10.1155/2016/8309253

G protein-coupled receptors (GPCRs) are the largest receptor superfamily. In this paper, we try to employ physical-chemical properties, which come from SVM-Prot, to represent GPCR. Random Forest was utilized as classifier for distinguishing them from other protein sequences. MEME suite was used to detect the most significant 10 conserved motifs of human GPCRs. In the testing datasets, the average accuracy was 91.61%, and the average AUC was 0.9282. MEME discovery analysis showed that many motifs aggregated in the seven hydrophobic helices transmembrane regions adapt to the characteristic of GPCRs. All of the above indicate that our machine-learning method can successfully distinguish GPCRs from non-GPCRs.