PubRank

Darren R Flower

Author PubWeight™ 102.41‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Determinants of human immunodeficiency virus type 1 escape from the primary CD8+ cytotoxic T lymphocyte response. J Exp Med 2004 3.48
2 Benchmarking B cell epitope prediction: underperformance of existing methods. Protein Sci 2004 2.70
3 VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinformatics 2007 2.10
4 JenPep: a database of quantitative functional peptide data for immunology. Bioinformatics 2002 1.75
5 Identifiying human MHC supertypes using bioinformatic methods. J Immunol 2004 1.72
6 JenPep: a novel computational information resource for immunobiology and vaccinology. J Chem Inf Comput Sci 2003 1.64
7 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
8 SVRMHC prediction server for MHC-binding peptides. BMC Bioinformatics 2006 1.59
9 In silico identification of supertypes for class II MHCs. J Immunol 2005 1.52
10 MHCPred: A server for quantitative prediction of peptide-MHC binding. Nucleic Acids Res 2003 1.48
11 Benchmarking pK(a) prediction. BMC Biochem 2006 1.47
12 Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores. BMC Bioinformatics 2006 1.41
13 Identifying candidate subunit vaccines using an alignment-independent method based on principal amino acid properties. Vaccine 2006 1.37
14 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
15 EpiJen: a server for multistep T cell epitope prediction. BMC Bioinformatics 2006 1.26
16 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
17 Quantitative prediction of mouse class I MHC peptide binding affinity using support vector machine regression (SVR) models. BMC Bioinformatics 2006 1.22
18 Harnessing bioinformatics to discover new vaccines. Drug Discov Today 2007 1.22
19 MHCPred: bringing a quantitative dimension to the online prediction of MHC binding. Appl Bioinformatics 2003 1.19
20 Bacterial bioinformatics: pathogenesis and the genome. J Mol Microbiol Biotechnol 2002 1.18
21 AntigenDB: an immunoinformatics database of pathogen antigens. Nucleic Acids Res 2009 1.18
22 Computer-aided biotechnology: from immuno-informatics to reverse vaccinology. Trends Biotechnol 2008 1.13
23 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
24 PPD v1.0--an integrated, web-accessible database of experimentally determined protein pKa values. Nucleic Acids Res 2006 1.10
25 FIMM, a database of functional molecular immunology: update 2002. Nucleic Acids Res 2002 1.06
26 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
27 Transporter associated with antigen processing preselection of peptides binding to the MHC: a bioinformatic evaluation. J Immunol 2004 1.04
28 BPROMPT: A consensus server for membrane protein prediction. Nucleic Acids Res 2003 1.03
29 On the hierarchical classification of G protein-coupled receptors. Bioinformatics 2007 1.01
30 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
31 Quantitative online prediction of peptide binding to the major histocompatibility complex. J Mol Graph Model 2004 1.01
32 LIPPRED: A web server for accurate prediction of lipoprotein signal sequences and cleavage sites. Bioinformation 2006 1.01
33 Physicochemical explanation of peptide binding to HLA-A*0201 major histocompatibility complex: a three-dimensional quantitative structure-activity relationship study. Proteins 2002 1.00
34 MHC class I bound to an immunodominant Theileria parva epitope demonstrates unconventional presentation to T cell receptors. PLoS Pathog 2010 0.99
35 Greater CD8+ TCR heterogeneity and functional flexibility in HIV-2 compared to HIV-1 infection. J Immunol 2003 0.99
36 On the hydrophobicity of peptides: Comparing empirical predictions of peptide log P values. Bioinformation 2006 0.97
37 HLA-A3 supermotif defined by quantitative structure-activity relationship analysis. Protein Eng 2003 0.97
38 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
39 Molecular basis of peptide recognition by the TCR: affinity differences calculated using large scale computing. J Immunol 2005 0.96
40 Proteomic applications of automated GPCR classification. Proteomics 2007 0.95
41 Evolutionary dynamics of hepatitis C virus envelope genes during chronic infection. J Gen Virol 2005 0.95
42 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
43 Toward prediction of class II mouse major histocompatibility complex peptide binding affinity: in silico bioinformatic evaluation using partial least squares, a robust multivariate statistical technique. J Chem Inf Model 2006 0.91
44 Peptide binding prediction for the human class II MHC allele HLA-DP2: a molecular docking approach. BMC Struct Biol 2011 0.91
45 MHCPred 2.0: an updated quantitative T-cell epitope prediction server. Appl Bioinformatics 2006 0.90
46 A comparative molecular similarity index analysis (CoMSIA) study identifies an HLA-A2 binding supermotif. J Comput Aided Mol Des 2003 0.90
47 Immunoinformatics. Predicting immunogenicity in silico. Preface. Methods Mol Biol 2007 0.90
48 Peptide length significantly influences in vitro affinity for MHC class II molecules. Immunome Res 2008 0.88
49 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
50 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
51 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
52 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
53 Peptide binding to the HLA-DRB1 supertype: a proteochemometrics analysis. Eur J Med Chem 2009 0.86
54 Class I T-cell epitope prediction: improvements using a combination of proteasome cleavage, TAP affinity, and MHC binding. Mol Immunol 2006 0.86
55 Toward bacterial protein sub-cellular location prediction: single-class discrimminant models for all gram- and gram+ compartments. Bioinformation 2006 0.85
56 In silico prediction of peptide-MHC binding affinity using SVRMHC. Methods Mol Biol 2007 0.85
57 Multi-class subcellular location prediction for bacterial proteins. Bioinformation 2006 0.84
58 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
59 Optimizing amino acid groupings for GPCR classification. Bioinformatics 2008 0.84
60 Statistical deconvolution of enthalpic energetic contributions to MHC-peptide binding affinity. BMC Struct Biol 2006 0.83
61 EpiTOP--a proteochemometric tool for MHC class II binding prediction. Bioinformatics 2010 0.83
62 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
63 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
64 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
65 GPCRTree: online hierarchical classification of GPCR function. BMC Res Notes 2008 0.82
66 Immunoinformatic evaluation of multiple epitope ensembles as vaccine candidates: E coli 536. Bioinformation 2012 0.82
67 Quantitative approaches to computational vaccinology. Immunol Cell Biol 2002 0.82
68 AllerTOP--a server for in silico prediction of allergens. BMC Bioinformatics 2013 0.82
69 Identification of the HLA-DM/HLA-DR interface. Mol Immunol 2007 0.81
70 An update on the functional molecular immunology (FIMM) database. Appl Bioinformatics 2005 0.81
71 TATPred: a Bayesian method for the identification of twin arginine translocation pathway signal sequences. Bioinformation 2006 0.81
72 Quantitative structure-activity relationships and the prediction of MHC supermotifs. Methods 2004 0.80
73 Combining algorithms to predict bacterial protein sub-cellular location: Parallel versus concurrent implementations. Bioinformation 2006 0.79
74 Toward the prediction of class I and II mouse major histocompatibility complex-peptide-binding affinity: in silico bioinformatic step-by-step guide using quantitative structure-activity relationships. Methods Mol Biol 2007 0.79
75 Novel perforin mutation in a patient with hemophagocytic lymphohistiocytosis and CD45 abnormal splicing. Am J Med Genet A 2003 0.79
76 Lipocalins in bioscience: the first family gathering. Bioessays 2004 0.79
77 Receptor-ligand binding sites and virtual screening. Curr Med Chem 2006 0.79
78 A comparative molecular similarity indices (CoMSIA) study of peptide binding to the HLA-A3 superfamily. Bioorg Med Chem 2003 0.79
79 From 'perfect mix' to 'potion magique'-- regulatory T cells and anti-inflammatory cytokines as adjuvant targets. Nat Rev Microbiol 2008 0.79
80 Using databases and data mining in vaccinology. Expert Opin Drug Discov 2007 0.78
81 Beta barrel trans-membrane proteins: Enhanced prediction using a Bayesian approach. Bioinformation 2006 0.78
82 MHC Class II Binding Prediction-A Little Help from a Friend. J Biomed Biotechnol 2010 0.78
83 Empirical prediction of peptide octanol-water partition coefficients. Bioinformation 2006 0.78
84 Static energy analysis of MHC class I and class II peptide-binding affinity. Methods Mol Biol 2007 0.77
85 In silico identification of novel G protein coupled receptors. Methods Mol Biol 2009 0.76
86 Molecular dynamics simulations: bring biomolecular structures alive on a computer. Methods Mol Biol 2007 0.76
87 Present perspectives on the automated classification of the G-protein coupled receptors (GPCRs) at the protein sequence level. Curr Top Med Chem 2011 0.76
88 AllerTOP v.2--a server for in silico prediction of allergens. J Mol Model 2014 0.76
89 EpiDOCK: a molecular docking-based tool for MHC class II binding prediction. Protein Eng Des Sel 2013 0.76
90 Histidine hydrogen bonding in MHC at pH 5 and pH 7 modeled by molecular docking and molecular dynamics simulations. Curr Comput Aided Drug Des 2014 0.76
91 HLA-DP2 binding prediction by molecular dynamics simulations. Protein Sci 2011 0.76
92 The classification of HLA supertypes by GRID/CPCA and hierarchical clustering methods. Methods Mol Biol 2007 0.75
93 Alpha helical trans-membrane proteins: Enhanced prediction using a Bayesian approach. Bioinformation 2006 0.75
94 Discriminating antigen and non-antigen using proteome dissimilarity: bacterial antigens. Bioinformation 2010 0.75
95 Discriminating antigen and non-antigen using proteome dissimilarity II: viral and fungal antigens. Bioinformation 2010 0.75
96 Peptide binding to HLA-DP proteins at pH 5.0 and pH 7.0: a quantitative molecular docking study. BMC Struct Biol 2012 0.75
97 A predictor of membrane class: Discriminating alpha-helical and beta-barrel membrane proteins from non-membranous proteins. Bioinformation 2006 0.75
98 Discriminating antigen and non-antigen using proteome dissimilarity III: tumour and parasite antigens. Bioinformation 2010 0.75
99 DSD--an integrated, web-accessible database of Dehydrogenase Enzyme Stereospecificities. BMC Bioinformatics 2005 0.75