IFNepitope


A server for predicting and designing
interferon-gamma inducing epitopes

Help

IFNepitope : is a web server to predict and design the epitope, which could induce the release of interferon gamma. The webserver has been developed on the basis of a dataset, which comprises of IFN-gamma inducing and non-inducing MHC class II binders. This page provides help on different modules of server. Following are major modules in this server
Predict: This module allows users to predict the IFN-gamma inducing peptide/epitope in a set of peptides or peptide library (virtual screening). User may submit large number of peptides and server will predict and rank them based on their potential to induce IFN-gamma.
Design: It generate mutant of a query peptide and predict IFN-gamma inducing epitopes in mutants. This server allows users to identify minimum mutations required to increase its potency.
Scan: This module generates overlapping peptides of the query protein/antigen sequence and predicts IFN-gamma inducting ability of these antigenic regions. It allows users to identify regions in a protein/antigen have potency to induce IFN-gamma.
Predict: This module has been developed to predict the IFNepitopes in given epitopes.

INPUT: The input could be given in following format as described by an example screeshots.



Interpreting Results: The results would be displayed in user interactive forum, where sequence or score of peptide could be visited (Hyperlinked) to creates its mutant for designing best possible mutant.

Best Mutant: The hyperlinked would direct the user to output where all possible combination of mutant will be generated and their score will be displayed.

Resulted Motifs: The motif resultant motifs of that sequence could be visulized by visiting the hyperlinked number for that motifs i.e. positive OR negative.

Design: This block has been developed to design and compare score of all possible IFNepitopes in given sequence.

INPUT: The input is similar to predict module input as described by an example screeshots.


Interpreting Results: The results would be visualized in tabulated format where sequence or score of sequence will be displayed. Once the user click this sequence/score, the page will be automatically directed to generated mutants and their corresponding scores.



Scan : This script has been written to scan and compare all possible IFNepitopes in given protein sequence.

INPUT: The input format is very user friendly where protein sequence could be pasted or browsed as described by an example screeshots. This input sequence will then splited into peptides which could be selected by user in the input form. The all overlapped peptide would be then predicted for their capability of being IFNepitope.



Interpreting Results: The output of this module is also very interactive where the peptides sequence and their correponding position in the protein would be presented and user are allowed to generate the possible mutant for each sequence, but one at a time.



Best Mutant: The selected sequence would enter in to design different mutant possible at each position and result will be presented to user in tabular format.