tools.iedb.org
Datasets
http://tools.iedb.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...
tools.iedb.org
Analysis Tools
http://tools.iedb.org/main/analysis-tools
The tools below are intended for the detailed analysis of a known epitope sequence or group of sequences. This tool calculates the fraction of individuals predicted to respond to a given set of epitopes with known MHC restrictions. This calculation is made on the basis of HLA genotypic frequencies assuming non-linkage disequilibrium between HLA loci. Computational Methods for Mapping Mimotopes to Protein Antigens. This page provides information on available methods for mimotope mapping, how to search the...
tools.iedb.org
References
http://tools.iedb.org/main/references
MHC Class I Prediction - ANN method. MHC Class I Prediction - ARB method. MHC Class I Prediction - SMM method. MHC Class I Prediction - NetMHCcons method. MHC Class I Prediction - PickPocket method. MHC Class II Prediction. Combined Proteasomal Cleavage/TAP Transport/MHC Class I Predictor. Scale-Based B Cell Epitope Prediction. MHC Class I Prediction - ANN method. MHC Class I Prediction - ARB method. MHC Class I Prediction - SMM method. MHC Class I Prediction - NetMHCcons method. Zhang H, Lund O and Niel...
tools.immuneepitope.org
Analysis Tools
http://tools.immuneepitope.org/main/analysis-tools
The tools below are intended for the detailed analysis of a known epitope sequence or group of sequences. This tool calculates the fraction of individuals predicted to respond to a given set of epitopes with known MHC restrictions. This calculation is made on the basis of HLA genotypic frequencies assuming non-linkage disequilibrium between HLA loci. Computational Methods for Mapping Mimotopes to Protein Antigens. This page provides information on available methods for mimotope mapping, how to search the...
tools.immuneepitope.org
References
http://tools.immuneepitope.org/main/references
MHC Class I Prediction - ANN method. MHC Class I Prediction - ARB method. MHC Class I Prediction - SMM method. MHC Class I Prediction - NetMHCcons method. MHC Class I Prediction - PickPocket method. MHC Class II Prediction. Combined Proteasomal Cleavage/TAP Transport/MHC Class I Predictor. Scale-Based B Cell Epitope Prediction. MHC Class I Prediction - ANN method. MHC Class I Prediction - ARB method. MHC Class I Prediction - SMM method. MHC Class I Prediction - NetMHCcons method. Zhang H, Lund O and Niel...
tools.immuneepitope.org
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...
tools.immuneepitope.org
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...
tools.iedb.org
B Cell Tools
http://tools.iedb.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...
