title: Computer-aided designing of immunosuppressive peptides based on IL-10 inducing potential.
abstract: In the past, numerous methods have been developed to predict MHC class II binders or T-helper epitopes for designing the epitope-based vaccines against pathogens. In contrast, limited attempts have been made to develop methods for predicting T-helper epitopes/peptides that can induce a specific type of cytokine. This paper describes a method, developed for predicting interleukin-10 (IL-10) inducing peptides, a cytokine responsible for suppressing the immune system. All models were trained and tested on experimentally validated 394 IL-10 inducing and 848 non-inducing peptides. It was observed that certain types of residues and motifs are more frequent in IL-10 inducing peptides than in non-inducing peptides. Based on this analysis, we developed composition-based models using various machine-learning techniques. Random Forest-based model achieved the maximum Matthews's Correlation Coefficient (MCC) value of 0.59 with an accuracy of 81.24% developed using dipeptide composition. In order to facilitate the community, we developed a web server "IL-10pred", standalone packages and a mobile app for designing IL-10 inducing peptides (http://crdd.osdd.net/raghava/IL-10pred/).
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Gandharva
authors.initials: G
authors.lastname: Nagpal
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Salman Sadullah
authors.initials: SS
authors.lastname: Usmani
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Sandeep Kumar
authors.initials: SK
authors.lastname: Dhanda
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Harpreet
authors.initials: H
authors.lastname: Kaur
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Sandeep
authors.initials: S
authors.lastname: Singh
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Meenu
authors.initials: M
authors.lastname: Sharma
authors.affiliation: CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, - 160036 India.
authors.forename: Gajendra P S
authors.initials: GP
authors.lastname: Raghava
mesh_terms: D003198:Computer Simulation; D017076:Computer-Aided Design; D006801:Humans; D007166:Immunosuppressive Agents / Q000737:chemistry* / Q000276:immunology; D016753:Interleukin-10 / Q000378:metabolism*; D063731:Mobile Applications; D010455:Peptides / Q000737:chemistry* / Q000276:immunology; D060388:Support Vector Machine; D064878:Web Browser
chemical_list: C508609:IL10 protein, human; D007166:Immunosuppressive Agents; D010455:Peptides; D016753:Interleukin-10