Published in J Chem Inf Model on May 22, 2006
Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores. BMC Bioinformatics (2006) 1.41
Quantitative prediction of mouse class I MHC peptide binding affinity using support vector machine regression (SVR) models. BMC Bioinformatics (2006) 1.22
MultiRTA: a simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes. BMC Bioinformatics (2010) 0.98
Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model. BMC Bioinformatics (2010) 0.95
A probabilistic meta-predictor for the MHC class II binding peptides. Immunogenetics (2007) 0.95
Towards universal structure-based prediction of class II MHC epitopes for diverse allotypes. PLoS One (2010) 0.85
Role of the transgenic human thyrotropin receptor A-subunit in thyroiditis induced by A-subunit immunization and regulatory T cell depletion. Clin Exp Immunol (2008) 0.84
Statistical deconvolution of enthalpic energetic contributions to MHC-peptide binding affinity. BMC Struct Biol (2006) 0.83
Robust quantitative modeling of peptide binding affinities for MHC molecules using physical-chemical descriptors. Protein Pept Lett (2007) 0.77
Virtual interactomics of proteins from biochemical standpoint. Mol Biol Int (2012) 0.75
Determinants of human immunodeficiency virus type 1 escape from the primary CD8+ cytotoxic T lymphocyte response. J Exp Med (2004) 3.48
Benchmarking B cell epitope prediction: underperformance of existing methods. Protein Sci (2004) 2.70
VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinformatics (2007) 2.10
JenPep: a database of quantitative functional peptide data for immunology. Bioinformatics (2002) 1.75
Identifiying human MHC supertypes using bioinformatic methods. J Immunol (2004) 1.72
JenPep: a novel computational information resource for immunobiology and vaccinology. J Chem Inf Comput Sci (2003) 1.64
Analysis of peptide-protein binding using amino acid descriptors: prediction and experimental verification for human histocompatibility complex HLA-A0201. J Med Chem (2005) 1.62
SVRMHC prediction server for MHC-binding peptides. BMC Bioinformatics (2006) 1.59
In silico identification of supertypes for class II MHCs. J Immunol (2005) 1.52
MHCPred: A server for quantitative prediction of peptide-MHC binding. Nucleic Acids Res (2003) 1.48
Benchmarking pK(a) prediction. BMC Biochem (2006) 1.47
Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores. BMC Bioinformatics (2006) 1.41
Identifying candidate subunit vaccines using an alignment-independent method based on principal amino acid properties. Vaccine (2006) 1.37
In silico identified CCR4 antagonists target regulatory T cells and exert adjuvant activity in vaccination. Proc Natl Acad Sci U S A (2008) 1.34
EpiJen: a server for multistep T cell epitope prediction. BMC Bioinformatics (2006) 1.26
Additive method for the prediction of protein-peptide binding affinity. Application to the MHC class I molecule HLA-A*0201. J Proteome Res (2003) 1.23
Quantitative prediction of mouse class I MHC peptide binding affinity using support vector machine regression (SVR) models. BMC Bioinformatics (2006) 1.22
Harnessing bioinformatics to discover new vaccines. Drug Discov Today (2007) 1.22
MHCPred: bringing a quantitative dimension to the online prediction of MHC binding. Appl Bioinformatics (2003) 1.19
Bacterial bioinformatics: pathogenesis and the genome. J Mol Microbiol Biotechnol (2002) 1.18
AntigenDB: an immunoinformatics database of pathogen antigens. Nucleic Acids Res (2009) 1.18
Computer-aided biotechnology: from immuno-informatics to reverse vaccinology. Trends Biotechnol (2008) 1.13
Towards the chemometric dissection of peptide--HLA-A*0201 binding affinity: comparison of local and global QSAR models. J Comput Aided Mol Des (2005) 1.11
PPD v1.0--an integrated, web-accessible database of experimentally determined protein pKa values. Nucleic Acids Res (2006) 1.10
FIMM, a database of functional molecular immunology: update 2002. Nucleic Acids Res (2002) 1.06
Mycobacterium tuberculosis peptides presented by HLA-E molecules are targets for human CD8 T-cells with cytotoxic as well as regulatory activity. PLoS Pathog (2010) 1.06
Transporter associated with antigen processing preselection of peptides binding to the MHC: a bioinformatic evaluation. J Immunol (2004) 1.04
BPROMPT: A consensus server for membrane protein prediction. Nucleic Acids Res (2003) 1.03
Synthesis and antiproliferative activity of benzo[d]isothiazole hydrazones. Eur J Med Chem (2006) 1.03
On the hierarchical classification of G protein-coupled receptors. Bioinformatics (2007) 1.01
Toward an atomistic understanding of the immune synapse: large-scale molecular dynamics simulation of a membrane-embedded TCR-pMHC-CD4 complex. Mol Immunol (2007) 1.01
Quantitative online prediction of peptide binding to the major histocompatibility complex. J Mol Graph Model (2004) 1.01
LIPPRED: A web server for accurate prediction of lipoprotein signal sequences and cleavage sites. Bioinformation (2006) 1.01
Physicochemical explanation of peptide binding to HLA-A*0201 major histocompatibility complex: a three-dimensional quantitative structure-activity relationship study. Proteins (2002) 1.00
MHC class I bound to an immunodominant Theileria parva epitope demonstrates unconventional presentation to T cell receptors. PLoS Pathog (2010) 0.99
Greater CD8+ TCR heterogeneity and functional flexibility in HIV-2 compared to HIV-1 infection. J Immunol (2003) 0.99
On the hydrophobicity of peptides: Comparing empirical predictions of peptide log P values. Bioinformation (2006) 0.97
HLA-A3 supermotif defined by quantitative structure-activity relationship analysis. Protein Eng (2003) 0.97
Coupling in silico and in vitro analysis of peptide-MHC binding: a bioinformatic approach enabling prediction of superbinding peptides and anchorless epitopes. J Immunol (2004) 0.97
Molecular basis of peptide recognition by the TCR: affinity differences calculated using large scale computing. J Immunol (2005) 0.96
Computer aided selection of candidate vaccine antigens. Immunome Res (2010) 0.95
Proteomic applications of automated GPCR classification. Proteomics (2007) 0.95
Evolutionary dynamics of hepatitis C virus envelope genes during chronic infection. J Gen Virol (2005) 0.95
Visualizing helicases unwinding DNA at the single molecule level. Nucleic Acids Res (2010) 0.93
New horizons in mouse immunoinformatics: reliable in silico prediction of mouse class I histocompatibility major complex peptide binding affinity. Org Biomol Chem (2004) 0.92
Peptide binding prediction for the human class II MHC allele HLA-DP2: a molecular docking approach. BMC Struct Biol (2011) 0.91
MHCPred 2.0: an updated quantitative T-cell epitope prediction server. Appl Bioinformatics (2006) 0.90
Immunoinformatics. Predicting immunogenicity in silico. Preface. Methods Mol Biol (2007) 0.90
A comparative molecular similarity index analysis (CoMSIA) study identifies an HLA-A2 binding supermotif. J Comput Aided Mol Des (2003) 0.90
Large-scale molecular dynamics simulations of HLA-A*0201 complexed with a tumor-specific antigenic peptide: can the alpha3 and beta2m domains be neglected? J Comput Chem (2004) 0.88
In silico prediction of peptide binding affinity to class I mouse major histocompatibility complexes: a comparative molecular similarity index analysis (CoMSIA) study. J Chem Inf Model (2005) 0.88
Peptide length significantly influences in vitro affinity for MHC class II molecules. Immunome Res (2008) 0.88
Immunoinformatics and the prediction of immunogenicity. Appl Bioinformatics (2002) 0.87
Peptide recognition by the T cell receptor: comparison of binding free energies from thermodynamic integration, Poisson-Boltzmann and linear interaction energy approximations. Philos Trans A Math Phys Eng Sci (2005) 0.87
A chemical genomic approach identifies matrix metalloproteinases as playing an essential and specific role in Xenopus melanophore migration. Chem Biol (2009) 0.87
Toward the discovery of vaccine adjuvants: coupling in silico screening and in vitro analysis of antagonist binding to human and mouse CCR4 receptors. PLoS One (2009) 0.86
Class I T-cell epitope prediction: improvements using a combination of proteasome cleavage, TAP affinity, and MHC binding. Mol Immunol (2006) 0.86
Peptide binding to the HLA-DRB1 supertype: a proteochemometrics analysis. Eur J Med Chem (2009) 0.86
Toward bacterial protein sub-cellular location prediction: single-class discrimminant models for all gram- and gram+ compartments. Bioinformation (2006) 0.85
In silico prediction of peptide-MHC binding affinity using SVRMHC. Methods Mol Biol (2007) 0.85
Toward the atomistic simulation of T cell epitopes automated construction of MHC: peptide structures for free energy calculations. J Mol Graph Model (2007) 0.84
Optimizing amino acid groupings for GPCR classification. Bioinformatics (2008) 0.84
Multi-class subcellular location prediction for bacterial proteins. Bioinformation (2006) 0.84
Monomeric PcrA helicase processively unwinds plasmid lengths of DNA in the presence of the initiator protein RepD. Nucleic Acids Res (2013) 0.83
Integrating in silico and in vitro analysis of peptide binding affinity to HLA-Cw*0102: a bioinformatic approach to the prediction of new epitopes. PLoS One (2009) 0.83
Predicting class I major histocompatibility complex (MHC) binders using multivariate statistics: comparison of discriminant analysis and multiple linear regression. J Chem Inf Model (2007) 0.83
Modeling the peptide-T cell receptor interaction by the comparative molecular similarity indices analysis-soft independent modeling of class analogy technique. J Med Chem (2006) 0.83
Statistical deconvolution of enthalpic energetic contributions to MHC-peptide binding affinity. BMC Struct Biol (2006) 0.83
Computational vaccinology: quantitative approaches. Novartis Found Symp (2003) 0.83
EpiTOP--a proteochemometric tool for MHC class II binding prediction. Bioinformatics (2010) 0.83
Quantitative approaches to computational vaccinology. Immunol Cell Biol (2002) 0.82
Immunoinformatic evaluation of multiple epitope ensembles as vaccine candidates: E coli 536. Bioinformation (2012) 0.82
GPCRTree: online hierarchical classification of GPCR function. BMC Res Notes (2008) 0.82
AllerTOP--a server for in silico prediction of allergens. BMC Bioinformatics (2013) 0.82
Identification of the HLA-DM/HLA-DR interface. Mol Immunol (2007) 0.81
Cloning, expression, and characterization of a novel molecular motor, Leishmania myosin-XXI. J Biol Chem (2012) 0.81
An update on the functional molecular immunology (FIMM) database. Appl Bioinformatics (2005) 0.81
TATPred: a Bayesian method for the identification of twin arginine translocation pathway signal sequences. Bioinformation (2006) 0.81
A single-molecule approach to visualize the unwinding activity of DNA helicases. Methods Mol Biol (2011) 0.80
Quantitative structure-activity relationships and the prediction of MHC supermotifs. Methods (2004) 0.80