tools.immuneepitope.org

IEDB Analysis Resource

Epitope Prediction and Analysis Tools. Welcome to the Immune Epitope Database Analysis Resource. This site provides a collection of tools for the prediction and analysis of immune epitopes. It serves as a companion site to the Immune Epitope Database (IEDB). A manually curated database of experimentally characterized immune epitopes. The tools contained fall into the following categories:. T Cell Epitope Prediction Tools. B Cell Epitope Prediction Tools.

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Epitope Prediction and Analysis Tools. Welcome to the Immune Epitope Database Analysis Resource. This site provides a collection of tools for the prediction and analysis of immune epitopes. It serves as a companion site to the Immune Epitope Database (IEDB). A manually curated database of experimentally characterized immune epitopes. The tools contained fall into the following categories:. T Cell Epitope Prediction Tools. B Cell Epitope Prediction Tools.

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2 overview

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4 b cell tools

5 analysis tools

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IEDB Analysis Resource | tools.immuneepitope.org Reviews

https://tools.immuneepitope.org

Epitope Prediction and Analysis Tools. Welcome to the Immune Epitope Database Analysis Resource. This site provides a collection of tools for the prediction and analysis of immune epitopes. It serves as a companion site to the Immune Epitope Database (IEDB). A manually curated database of experimentally characterized immune epitopes. The tools contained fall into the following categories:. T Cell Epitope Prediction Tools. B Cell Epitope Prediction Tools.

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tools.immuneepitope.org

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T Cell Tools

http://tools.immuneepitope.org/main/tcell

T Cell Epitope Prediction Tools. T Cell Epitopes - MHC Binding Prediction. These tools predict IC50 values for peptides binding to specific MHC molecules. Note that binding to MHC is necessary but not sufficient for recognition by T cells. Peptide binding to MHC class I molecules. This tool will take in an amino acid sequence, or set of sequences and determine each subsequence's ability to bind to a specific MHC class I molecule. Peptide binding to MHC class II molecules. MHC-NP employs data obtained fro...

2

Tools-API

http://tools.immuneepitope.org/main/tools-api

The full list of parameters and their values for MHC I and MHC II-binding, MHC I-processing and MHC-NP predictions are given in the table below. Please use these services instead of screen-scraping. If relevant services are missing, please contact us. Examples for Class-I binding prediction. 1) To run a single allele and length combination:. Curl - data "method=smm&sequence text=SLYNTVATLYCVHQRIDV&allele=HLA-A*01:01&length=9" http:/ tools-api.iedb.org/tools api/mhci/. This allows selection from 8 differe...

3

B Cell Tools

http://tools.immuneepitope.org/main/bcell

B Cell Epitope Prediction Tools. Prediction of linear epitopes from protein sequence. A collection of methods to predict linear B cell epitopes based on sequence characteristics of the antigen using amino acid scales and HMMs. Discotope - Prediction of epitopes from protein structure. This method incorporates solvent-accessible surface area calculations, as well as contact distances into its prediction of B cell epitope potential along the length of a protein sequence. This site is best viewed with curre...

4

Contribute Tools

http://tools.immuneepitope.org/main/contribute-tools

Contribute tools to the IEDB-AR. Send an email to help@iedb.org. And include the following information:. A summary of the problem that is addressed by your tool and why it is of general interest. The publication status of your tool. If there is a web server that currently hosts your tool, please provide the URL. The time frame in which you will be ready to hand off your tool to IEDB developers. You will receive a reply within 2 weeks with either a decision or a request for further information. A componen...

5

Datasets

http://tools.immuneepitope.org/main/datasets

For convenience, references and datasets related to benchmarking results of the IEDB Analysis Resource predictive tools are collected here. MHC class I binding prediction. Automated benchmarking of peptide-MHC class I binding predictions. Trolle T, Metushi IG, Greenbaum JA, Kim Y, Sidney J, Lund O, Sette A, Peters B, Nielsen M. Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions. Kim Y, Sidney J, Buus S, Sette A, Nielsen M, Peters B. The datas...

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GPS-MBA 1.0 - MHC-binding Analyzer

http://mba.biocuckoo.org/links.php

Last update: Feb. 28th, 2014. Computational resources of MHC binding epitopes :. Last updated: November 26th, 2011. We apologized that the computational studies without any web links of databases or tools will not be included in this compendium, since it's not easy for experimentalists to use studies directly. We are grateful for users feedback. Please inform Zexian Liu. Or Dr Jian Ren. To add, remove or update one or multiple web links below. 1 MHC binding epitopes Databases. Prediction of the ligation ...

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IEDB Analysis Resource

Epitope Prediction and Analysis Tools. Welcome to the Immune Epitope Database Analysis Resource. This site provides a collection of tools for the prediction and analysis of immune epitopes. It serves as a companion site to the Immune Epitope Database (IEDB). A manually curated database of experimentally characterized immune epitopes. The tools contained fall into the following categories:. T Cell Epitope Prediction Tools. B Cell Epitope Prediction Tools.

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