title: A computational model for predicting fusion peptide of retroviruses.
abstract: As a pivotal domain within envelope protein, fusion peptide (FP) plays a crucial role in pathogenicity and therapeutic intervention. Taken into account the limited FP annotations in NCBI database and absence of FP prediction software, it is urgent and desirable to develop a bioinformatics tool to predict new putative FPs (np-FPs) in retroviruses. In this work, a sequence-based FP model was proposed by combining Hidden Markov Method with similarity comparison. The classification accuracies are 91.97% and 92.31% corresponding to 10-fold and leave-one-out cross-validation. After scanning sequences without FP annotations, this model discovered 53,946 np-FPs. The statistical results on FPs or np-FPs reveal that FP is a conserved and hydrophobic domain. The FP software programmed for windows environment is available at https://sourceforge.net/projects/fptool/files/?source=navbar.
authors.affiliation: School of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.
authors.forename: Sijia
authors.initials: S
authors.lastname: Wu
authors.affiliation: School of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China. Electronic address: jqhan@mail.xjtu.edu.cn.
authors.forename: Jiuqiang
authors.initials: J
authors.lastname: Han
authors.affiliation: School of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.
authors.forename: Ruiling
authors.initials: R
authors.lastname: Liu
authors.affiliation: School of Electrical Engineering, Xi'an Jiaotong University, Xi'an, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Liu
authors.affiliation: School of Electronic and Information Engineering, Xi'an Jiaotong University, Xi'an, China.
authors.forename: Hongqiang
authors.initials: H
authors.lastname: Lv
mesh_terms: D008954:Models, Biological; D010455:Peptides / Q000378:metabolism*; D011993:Recombinant Fusion Proteins / Q000378:metabolism*; D012190:Retroviridae / Q000378:metabolism*
chemical_list: D010455:Peptides; D011993:Recombinant Fusion Proteins
keywords: Fusion peptide domain prediction; Hidden Markov Method; Similarity comparison