PubRank

Stephen H Bryant

Author PubWeight™ 379.73‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2005 22.98
2 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2007 22.53
3 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2008 21.36
4 CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res 2010 19.07
5 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2006 18.85
6 CDD: a Conserved Domain Database for protein classification. Nucleic Acids Res 2005 18.85
7 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2006 18.84
8 CDD: a database of conserved domain alignments with links to domain three-dimensional structure. Nucleic Acids Res 2002 18.54
9 CD-Search: protein domain annotations on the fly. Nucleic Acids Res 2004 16.76
10 Open mass spectrometry search algorithm. J Proteome Res 2004 15.25
11 CDD: a curated Entrez database of conserved domain alignments. Nucleic Acids Res 2003 14.38
12 CDART: protein homology by domain architecture. Genome Res 2002 12.95
13 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2009 12.51
14 CDD: a conserved domain database for interactive domain family analysis. Nucleic Acids Res 2006 11.41
15 PubChem: a public information system for analyzing bioactivities of small molecules. Nucleic Acids Res 2009 11.05
16 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2010 10.97
17 CDD: specific functional annotation with the Conserved Domain Database. Nucleic Acids Res 2008 10.73
18 Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 2011 8.62
19 MMDB: annotating protein sequences with Entrez's 3D-structure database. Nucleic Acids Res 2006 7.57
20 CDD: conserved domains and protein three-dimensional structure. Nucleic Acids Res 2012 6.39
21 MMDB: Entrez's 3D-structure database. Nucleic Acids Res 2003 6.14
22 The NCBI BioSystems database. Nucleic Acids Res 2009 4.80
23 An overview of the PubChem BioAssay resource. Nucleic Acids Res 2009 4.75
24 MMDB: Entrez's 3D-structure database. Nucleic Acids Res 2002 4.42
25 Comparison of sequence and structure alignments for protein domains. Proteins 2002 4.24
26 PubChem's BioAssay Database. Nucleic Acids Res 2011 3.74
27 PubChem as a public resource for drug discovery. Drug Discov Today 2010 3.40
28 Outcome of a workshop on archiving structural models of biological macromolecules. Structure 2006 2.32
29 PubChem BioAssay: 2014 update. Nucleic Acids Res 2013 2.14
30 MMDB: 3D structures and macromolecular interactions. Nucleic Acids Res 2011 2.06
31 The PubChem chemical structure sketcher. J Cheminform 2009 1.98
32 Inferred Biomolecular Interaction Server--a web server to analyze and predict protein interacting partners and binding sites. Nucleic Acids Res 2009 1.85
33 Annotation of functional sites with the Conserved Domain Database. Database (Oxford) 2012 1.81
34 MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res 2013 1.79
35 Structure-based virtual screening for drug discovery: a problem-centric review. AAPS J 2012 1.68
36 Modeling the evolution of protein domain architectures using maximum parsimony. J Mol Biol 2006 1.53
37 Finding biologically relevant protein domain interactions: conserved binding mode analysis. Protein Sci 2005 1.44
38 A survey of across-target bioactivity results of small molecules in PubChem. Bioinformatics 2009 1.39
39 PubChem3D: a new resource for scientists. J Cheminform 2011 1.31
40 The identification of complete domains within protein sequences using accurate E-values for semi-global alignment. Nucleic Acids Res 2007 1.24
41 Developing and validating predictive decision tree models from mining chemical structural fingerprints and high-throughput screening data in PubChem. BMC Bioinformatics 2008 1.24
42 Functional specificity lies within the properties and evolutionary changes of amino acids. J Mol Biol 2007 1.23
43 A novel method for mining highly imbalanced high-throughput screening data in PubChem. Bioinformatics 2009 1.19
44 Evolution of protein binding modes in homooligomers. J Mol Biol 2009 1.17
45 IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins. Nucleic Acids Res 2011 1.16
46 Refining multiple sequence alignments with conserved core regions. Nucleic Acids Res 2006 1.15
47 A comparison of position-specific score matrices based on sequence and structure alignments. Protein Sci 2002 1.13
48 Identifying compound-target associations by combining bioactivity profile similarity search and public databases mining. J Chem Inf Model 2011 1.12
49 PubChem3D: Biologically relevant 3-D similarity. J Cheminform 2011 1.04
50 Binary classification of aqueous solubility using support vector machines with reduction and recombination feature selection. J Chem Inf Model 2011 1.00
51 Fast 3D shape screening of large chemical databases through alignment-recycling. Chem Cent J 2007 1.00
52 PubChem3D: Conformer generation. J Cheminform 2011 0.99
53 Assessing data quality of peptide mass spectra obtained by quadrupole ion trap mass spectrometry. J Proteome Res 2005 0.99
54 PubChem3D: Similar conformers. J Cheminform 2011 0.98
55 Exploring functional roles of multibinding protein interfaces. Protein Sci 2009 0.97
56 PubChem3D: Diversity of shape. J Cheminform 2011 0.97
57 PubChem3D: conformer ensemble accuracy. J Cheminform 2013 0.96
58 PubChem3D: Shape compatibility filtering using molecular shape quadrupoles. J Cheminform 2011 0.95
59 Effects of multiple conformers per compound upon 3-D similarity search and bioassay data analysis. J Cheminform 2012 0.95
60 Assessment of conformational ensemble sizes necessary for specific resolutions of coverage of conformational space. J Chem Inf Model 2007 0.95
61 Functional states of homooligomers: insights from the evolution of glycosyltransferases. J Mol Biol 2010 0.94
62 Investigating the correlations among the chemical structures, bioactivity profiles and molecular targets of small molecules. Bioinformatics 2010 0.94
63 A structure-based method for protein sequence alignment. Bioinformatics 2004 0.89
64 Knowledge-based annotation of small molecule binding sites in proteins. BMC Bioinformatics 2010 0.87
65 Automated annotation of chemical names in the literature with tunable accuracy. J Cheminform 2011 0.85
66 Homology inference of protein-protein interactions via conserved binding sites. PLoS One 2012 0.83
67 FSelector: a Ruby gem for feature selection. Bioinformatics 2012 0.82
68 Increasing peptide identifications and decreasing search times for ETD spectra by pre-processing and calculation of parent precursor charge. Proteome Sci 2012 0.81
69 Molecular Imaging and Contrast Agent Database (MICAD): evolution and progress. Mol Imaging Biol 2012 0.81
70 Computational analysis of the cathepsin B inhibitors activities through LR-MMPBSA binding affinity calculation based on docked complex. J Comput Chem 2009 0.81
71 QSAR models for predicting cathepsin B inhibition by small molecules--continuous and binary QSAR models to classify cathepsin B inhibition activities of small molecules. J Mol Graph Model 2010 0.80
72 Characterizing protein domain associations by Small-molecule ligand binding. J Proteome Sci Comput Biol 2012 0.80
73 Modulating protein-protein interactions with small molecules: the importance of binding hotspots. J Mol Biol 2011 0.80
74 Pathway analysis for drug repositioning based on public database mining. J Chem Inf Model 2014 0.80
75 Pharmacophore and 3D-QSAR characterization of 6-arylquinazolin-4-amines as Cdc2-like kinase 4 (Clk4) and dual specificity tyrosine-phosphorylation-regulated kinase 1A (Dyrk1A) inhibitors. J Chem Inf Model 2013 0.79
76 Automatic annotation of experimentally derived, evolutionarily conserved post-translational modifications onto multiple genomes. Database (Oxford) 2011 0.78
77 Improving protein structure similarity searches using domain boundaries based on conserved sequence information. BMC Struct Biol 2009 0.78
78 Protein homologous cores and loops: important clues to evolutionary relationships between structurally similar proteins. BMC Struct Biol 2007 0.77
79 State of the art: refinement of multiple sequence alignments. BMC Bioinformatics 2006 0.77
80 Multi-conformation 3D QSAR study of benzenesulfonyl-pyrazol-ester compounds and their analogs as cathepsin B inhibitors. J Mol Graph Model 2011 0.75