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Welcome to SBS EpiToolKit

Overview
SBS EpiToolKit is a service of the Division for Simulation of Biological Systems at University of Tuebingen. The aim of this website and its services is to support immunological research. It provides a collection of methods from computational immunology for the prediction of MHC ligands or potential T-Cell epitopes. Additionally, SNEPv2 extends epitope prediction by the possibility to analyze the influence of protein polymorphisms on the immunogenicity of the arising polymorphic peptides.
The navigation through the individual steps is guided by this navigation bar top of each site of the prediction pipeline. In the pipeline it contains a short description of the current step. The color of the step in the navigation bar corresponds to the heading colors of this documentation and the help page.
1. Sequence input
   This step provides input fields to enter the sequences or to request for sequences from databases for which epitope predictions should be performed.
2. Sequence information
   This step displays the search results for sequences and shows additional information. Sequences can be selected or deselected for further steps of the prediction pipeline.
3. Allele selection
   This step provides the available methods and alleles. Select the desired alleles in the allele tree and start predictions.
4. Prediction results
   This step displays the prediction results. Here, different filters can be applied to the predictions.
During each step of the pipeline the corresponding help page can be accessed. To access the help page click on this button     
IMPORTANT NOTICE
Please do not submit jobs through scripts or robots. Furthermore, please be patient if running predictions for multiple sequences and/or for a large number of alleles. If you intend to run large-scale predictions please contact us so that we possibly can run this job for you offline.

Epitope prediction
Epitope prediction provides several methods for predicting potential T-Cell epitopes. Different sequence input possibilities provide access to the protein databases NCBI RefSeq [1] and UniProtKB/Swiss-Prot [2] which are periodically updated. Additionally, own sequences could be entered for prediction. Methods and alleles are available for MHC class I and MHC class II epitope prediction.
Go to Epitope prediction . . .

SNEPv2
SNEPv2 extends the Epitope prediction pipeline to examine the influence of sequence mutations on potential T-cell epitopes. This method supports the search for minor histocompatibility antigens (miHags). SNEPv2 searches for known polymorphisms in the entered protein sequences and makes predictions for all possible peptide variants.
Go to SNEPv2 . . .

MHCIIMulti
MHCIIMulti provides predictions for potential T-cell epitopes for a large number of MHC class II alleles.
Go to MHCIIMulti . . .

Documentation
References and help . . .
How to cite . . .
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