Improved methods for predicting peptide binding affinity to MHC class II molecules

NNAlign: a platform to construct and evaluate artificial neural network models of receptor–ligand interactions

(2017) Morten Nielsen et al.   NUCLEIC ACIDS RESEARCH

Accurate pan-specific prediction of peptide-MHC class II binding affinity with improved binding core identification

(2015) Massimo Andreatta et al.   IMMUNOGENETICS

Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions

(2014) Yohan Kim et al.   BMC BIOINFORMATICS

The immune epitope database (IEDB) 3.0

(2014) Randi Vita et al.   NUCLEIC ACIDS RESEARCH

MHCcluster, a method for functional clustering of MHC molecules

(2013) Martin Thomsen et al.   IMMUNOGENETICS

NetMHCIIpan-3.0, a common pan-specific MHC class II prediction method including all three human MHC class II isotypes, HLA-DR, HLA-DP and HLA-DQ

(2013) Edita Karosiene et al.   IMMUNOGENETICS

Re-Directing CD4+ T Cell Responses with the Flanking Residues of MHC Class II-Bound Peptides: The Core is Not Enough

(2013) Christopher J. Holland et al.   Frontiers in Immunology

Seq2Logo: a method for construction and visualization of amino acid binding motifs and sequence profiles including sequence weighting, pseudo counts and two-sided representation of amino acid enrichment and depletion

(2012) Martin Christen Frølund Thomsen et al.   NUCLEIC ACIDS RESEARCH

TEPITOPEpan: Extending TEPITOPE for Peptide Binding Prediction Covering over 700 HLA-DR Molecules

(2012) Lianming Zhang et al.   PLoS One

Toward more accurate pan-specific MHC-peptide binding prediction: a review of current methods and tools

(2011) L. Zhang et al.   BRIEFINGS IN BIOINFORMATICS

NetMHCcons: a consensus method for the major histocompatibility complex class I predictions

(2011) Edita Karosiene et al.   IMMUNOGENETICS

NNAlign: A Web-Based Prediction Method Allowing Non-Expert End-User Discovery of Sequence Motifs in Quantitative Peptide Data

(2011) Massimo Andreatta et al.   PLoS One

MHC Class II epitope predictive algorithms

(2010) Morten Nielsen et al.   IMMUNOLOGY

NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction

(2009) Morten Nielsen et al.   BMC BIOINFORMATICS

Pan-specific MHC class I predictors: a benchmark of HLA class I pan-specific prediction methods

(2008) Hao Zhang et al.   BIOINFORMATICS

Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research

(2008) Hong Lin et al.   BMC BIOINFORMATICS

Human MHC architecture and evolution: implications for disease association studies

(2008) J. A. Traherne   International Journal of Immunogenetics

Quantitative Predictions of Peptide Binding to Any HLA-DR Molecule of Known Sequence: NetMHCIIpan

(2008) Morten Nielsen et al.   PLoS Computational Biology

A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach

(2008) Peng Wang et al.   PLoS Computational Biology