MHC2MIL: a novel multiple instance learning based method for MHC-II peptide binding prediction by considering peptide flanking region and residue positions

Learning a peptide-protein binding affinity predictor with kernel ridge regression

(2013) Sébastien Giguère et al.   BMC BIOINFORMATICS

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

Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model

(2010) Andrew J Bordner et al.   BMC BIOINFORMATICS

MultiRTA: A simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes

(2010) Andrew J. Bordner et al.   BMC BIOINFORMATICS

Peptide binding predictions for HLA DR, DP and DQ molecules

(2010) Peng Wang et al.   BMC BIOINFORMATICS

Ensemble approaches for improving HLA Class I-peptide binding prediction

(2010) Xihao Hu et al.   JOURNAL OF IMMUNOLOGICAL METHODS

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

(2009) Morten Nielsen et al.   BMC BIOINFORMATICS

Shift-Invariant Adaptive Double Threading: Learning MHC II–Peptide Binding

(2008) Noah Zaitlen et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

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

(2008) Morten Nielsen et al.   PLoS Computational Biology