Examining the independent binding assumption for binding of peptide epitopes to MHC-I molecules. - Björn Peters; Weiwei Tong; John Sidney; Alessandro Sette; Zhiping Weng (Bioinform., 2003)

The Immune Epitope Database and Analysis Resource. - Alessandro Sette; Huynh-Hoa Bui; John Sidney; Philip E. Bourne; Søren Buus; Ward Fleri; R. Kubo; Ole Lund; D. Nemazee; Julia V. Ponomarenko; Muthu Sathiamurthy; Scott Stewart; et al. (PRIB, 2006)

Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules. - Shanfeng Zhu; Keiko Udaka; John Sidney; Alessandro Sette; Kiyoko F. Aoki-Kinoshita; Hiroshi Mamitsuka (Bioinform., 2006)

Predicting population coverage of T-cell epitope-based diagnostics and vaccines. - Huynh-Hoa Bui; John Sidney; Kenny Dinh; Scott Southwood; Mark J. Newman; Alessandro Sette (BMC Bioinform., 2006)

Curation of complex, context-dependent immunological data. - Randi Vita; Kerrie Vaughan; Laura Zarebski; Nima Salimi; Ward Fleri; Howard Grey; Muthu Sathiamurthy; John Mokili; Huynh-Hoa Bui; Philip E. Bourne; Julia V. Ponomarenko; Romulo de Castro Jr.; et al. (BMC Bioinform., 2006)

A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules. - Bjoern Peters; Huynh-Hoa Bui; Sune Frankild; Morten Nielsen 001; Claus Lundegaard; Emrah Kostem; Derek Basch; Kasper Lamberth; Mikkel Harndahl; Ward Fleri; Stephen S. Wilson; John Sidney; et al. (PLoS Comput. Biol., 2006)

Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines. - Huynh-Hoa Bui; John Sidney; Wei Li; Nicholas Fusseder; Alessandro Sette (BMC Bioinform., 2007)

A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach. - Peng Wang 014; John Sidney; Courtney Dow; Bianca Mothé; Alessandro Sette; Björn Peters (PLoS Comput. Biol., 2008)

Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior. - Yohan Kim; John Sidney; Clemencia Pinilla; Alessandro Sette; Björn Peters (BMC Bioinform., 2009)

An automatic computational pipeline to display MHC binding motifs. - Peng Wang 014; Björn Peters; John Sidney; Alessandro Sette (BCB, 2010)

Peptide binding predictions for HLA DR, DP and DQ molecules. - Peng Wang 014; John Sidney; Yohan Kim; Alessandro Sette; Ole Lund; Morten Nielsen 001; Björn Peters (BMC Bioinform., 2010)

Development and validation of a broad scheme for prediction of HLA class II restricted T cell epitopes. - Sinu Paul; John Sidney; Bjoern Peters; Alessandro Sette (BCB, 2014)

Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions. - Yohan Kim; John Sidney; Søren Buus; Alessandro Sette; Morten Nielsen 001; Bjoern Peters (BMC Bioinform., 2014)

Automated benchmarking of peptide-MHC class I binding predictions. - Thomas Trolle; Imir G. Metushi; Jason A. Greenbaum; Yohan Kim; John Sidney; Ole Lund; Alessandro Sette; Bjoern Peters; Morten Nielsen 001 (Bioinform., 2015)

An ontology for major histocompatibility restriction. - Randi Vita; James A. Overton; Emily Seymour; John Sidney; Jim Kaufman; Rebecca L. Tallmadge; Shirley Ellis; John Hammond; Geoff W. Butcher; Alessandro Sette; Bjoern Peters (J. Biomed. Semant., 2016)