John Sidney

Publication Activity (10 Years)

Years Active: 2003-2016
Publications (10 Years): 2

Top Topics

Binding Peptides

Major Histocompatibility Complex

Artificial Intelligence

Top Venues

J. Biomed. Semant.

Publications

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
An ontology for major histocompatibility restriction. J. Biomed. Semant. 7 (2016)
Thomas Trolle, Imir G. Metushi, Jason A. Greenbaum, Yohan Kim, John Sidney, Ole Lund, Alessandro Sette, Bjoern Peters, Morten Nielsen
Automated benchmarking of peptide-MHC class I binding predictions. Bioinform. 31 (13) (2015)
Sinu Paul, John Sidney, Bjoern Peters, Alessandro Sette
Development and validation of a broad scheme for prediction of HLA class II restricted T cell epitopes. BCB (2014)
Yohan Kim, John Sidney, Søren Buus, Alessandro Sette, Morten Nielsen, Bjoern Peters
Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions. BMC Bioinform. 15 (2014)
Peng Wang, Björn Peters, John Sidney, Alessandro Sette
An automatic computational pipeline to display MHC binding motifs. BCB (2010)
Peng Wang, John Sidney, Yohan Kim, Alessandro Sette, Ole Lund, Morten Nielsen, Björn Peters
Peptide binding predictions for HLA DR, DP and DQ molecules. BMC Bioinform. 11 (2010)
Yohan Kim, John Sidney, Clemencia Pinilla, Alessandro Sette, Björn Peters
Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior. BMC Bioinform. 10 (2009)
Peng Wang, John Sidney, Courtney Dow, Bianca Mothé, Alessandro Sette, Björn Peters
A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach. PLoS Comput. Biol. 4 (4) (2008)
Huynh-Hoa Bui, John Sidney, Wei Li, Nicholas Fusseder, Alessandro Sette
Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines. BMC Bioinform. 8 (2007)
Huynh-Hoa Bui, John Sidney, Kenny Dinh, Scott Southwood, Mark J. Newman, Alessandro Sette
Predicting population coverage of T-cell epitope-based diagnostics and vaccines. BMC Bioinform. 7 (2006)
Bjoern Peters, Huynh-Hoa Bui, Sune Frankild, Morten Nielsen, Claus Lundegaard, Emrah Kostem, Derek Basch, Kasper Lamberth, Mikkel Harndahl, Ward Fleri, Stephen S. Wilson, John Sidney, Ole Lund, Søren Buus, Alessandro Sette
A Community Resource Benchmarking Predictions of Peptide Binding to MHC-I Molecules. PLoS Comput. Biol. 2 (6) (2006)
Shanfeng Zhu, Keiko Udaka, John Sidney, Alessandro Sette, Kiyoko F. Aoki-Kinoshita, Hiroshi Mamitsuka
Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules. Bioinform. 22 (13) (2006)
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., Russell K. Chan, John Sidney, Stephen S. Wilson, Scott Stewart, Scott Way, Björn Peters, Alessandro Sette
Curation of complex, context-dependent immunological data. BMC Bioinform. 7 (2006)
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, Scott Way, Stephen S. Wilson, Björn Peters
The Immune Epitope Database and Analysis Resource. PRIB (2006)
Björn Peters, Weiwei Tong, John Sidney, Alessandro Sette, Zhiping Weng
Examining the independent binding assumption for binding of peptide epitopes to MHC-I molecules. Bioinform. 19 (14) (2003)