Published in Database (Oxford) on March 07, 2011
Annotating RNA motifs in sequences and alignments. Nucleic Acids Res (2014) 0.83
Two structural motifs within canonical EF-hand calcium-binding domains identify five different classes of calcium buffers and sensors. PLoS One (2014) 0.78
The Protein Data Bank. Nucleic Acids Res (2000) 187.10
Announcing the worldwide Protein Data Bank. Nat Struct Biol (2003) 17.06
The Protein Data Bank: unifying the archive. Nucleic Acids Res (2002) 12.37
The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema. Nucleic Acids Res (2005) 7.81
The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Res (2010) 7.68
BioJava: an open-source framework for bioinformatics. Bioinformatics (2008) 6.17
Errors in genome annotation. Trends Genet (1999) 5.28
Preserving accuracy in GenBank. Science (2008) 5.09
Remediation of the protein data bank archive. Nucleic Acids Res (2007) 4.89
Modeling the percolation of annotation errors in a database of protein sequences. Bioinformatics (2002) 4.12
Intrinsic errors in genome annotation. Trends Genet (2001) 3.99
The PDB data uniformity project. Nucleic Acids Res (2001) 3.65
Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective. PLoS One (2006) 3.24
STAR/mmCIF: an ontology for macromolecular structure. Bioinformatics (2000) 2.51
Pre-calculated protein structure alignments at the RCSB PDB website. Bioinformatics (2010) 2.28
Integration of open access literature into the RCSB Protein Data Bank using BioLit. BMC Bioinformatics (2010) 1.22
A survey of quality assurance practices in biomedical open source software projects. J Med Internet Res (2007) 0.88
The Protein Data Bank. Acta Crystallogr D Biol Crystallogr (2002) 14.44
The Protein Data Bank: unifying the archive. Nucleic Acids Res (2002) 12.37
The Protein Data Bank and structural genomics. Nucleic Acids Res (2003) 8.34
The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema. Nucleic Acids Res (2005) 7.81
The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Res (2010) 7.68
Validity of diagnostic coding within the General Practice Research Database: a systematic review. Br J Gen Pract (2010) 7.41
Ten simple rules for getting published. PLoS Comput Biol (2005) 7.22
The distribution and query systems of the RCSB Protein Data Bank. Nucleic Acids Res (2004) 7.03
The RCSB PDB information portal for structural genomics. Nucleic Acids Res (2006) 6.36
RNA backbone: consensus all-angle conformers and modular string nomenclature (an RNA Ontology Consortium contribution). RNA (2008) 5.94
The RCSB Protein Data Bank: new resources for research and education. Nucleic Acids Res (2012) 5.73
Remediation of the protein data bank archive. Nucleic Acids Res (2007) 4.89
BioLit: integrating biological literature with databases. Nucleic Acids Res (2008) 4.85
Outcome of the first electron microscopy validation task force meeting. Structure (2012) 4.35
TargetDB: a target registration database for structural genomics projects. Bioinformatics (2004) 4.17
SuperTarget and Matador: resources for exploring drug-target relationships. Nucleic Acids Res (2007) 3.82
PDBML: the representation of archival macromolecular structure data in XML. Bioinformatics (2004) 3.64
The RNA Ontology Consortium: an open invitation to the RNA community. RNA (2006) 3.60
EMDataBank.org: unified data resource for CryoEM. Nucleic Acids Res (2010) 3.32
Ten simple rules for getting grants. PLoS Comput Biol (2006) 3.13
Ten simple rules for a successful collaboration. PLoS Comput Biol (2007) 3.12
Automated and accurate deposition of structures solved by X-ray diffraction to the Protein Data Bank. Acta Crystallogr D Biol Crystallogr (2004) 3.11
BioJava: an open-source framework for bioinformatics in 2012. Bioinformatics (2012) 2.94
Adaptation and validation of the Charlson Index for Read/OXMIS coded databases. BMC Fam Pract (2010) 2.93
Catabolite activator protein: DNA binding and transcription activation. Curr Opin Struct Biol (2004) 2.91
Drug discovery using chemical systems biology: identification of the protein-ligand binding network to explain the side effects of CETP inhibitors. PLoS Comput Biol (2009) 2.84
Structural basis of transcription activation: the CAP-alpha CTD-DNA complex. Science (2002) 2.67
The Molecular Biology Toolkit (MBT): a modular platform for developing molecular visualization applications. BMC Bioinformatics (2005) 2.60
Ten simple rules for making good oral presentations. PLoS Comput Biol (2007) 2.57
Structural evolution of the protein kinase-like superfamily. PLoS Comput Biol (2005) 2.48
Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments. Proc Natl Acad Sci U S A (2008) 2.44
Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins. Nucleic Acids Res (2003) 2.37
Phylogeny determined by protein domain content. Proc Natl Acad Sci U S A (2005) 2.37
Drug discovery using chemical systems biology: repositioning the safe medicine Comtan to treat multi-drug and extensively drug resistant tuberculosis. PLoS Comput Biol (2009) 2.35
The Protein Feature Ontology: a tool for the unification of protein feature annotations. Bioinformatics (2008) 2.33
Outcome of a workshop on archiving structural models of biological macromolecules. Structure (2006) 2.32
Drug discovery using chemical systems biology: weak inhibition of multiple kinases may contribute to the anti-cancer effect of nelfinavir. PLoS Comput Biol (2011) 2.31
Data deposition and annotation at the worldwide protein data bank. Mol Biotechnol (2008) 2.30
Pre-calculated protein structure alignments at the RCSB PDB website. Bioinformatics (2010) 2.28
ElliPro: a new structure-based tool for the prediction of antibody epitopes. BMC Bioinformatics (2008) 2.26
Ligand Depot: a data warehouse for ligands bound to macromolecules. Bioinformatics (2004) 2.21
MSDsite: a database search and retrieval system for the analysis and viewing of bound ligands and active sites. Proteins (2005) 2.17
Open access: taking full advantage of the content. PLoS Comput Biol (2008) 2.14
Antibody-protein interactions: benchmark datasets and prediction tools evaluation. BMC Struct Biol (2007) 2.14
Immune epitope database analysis resource (IEDB-AR). Nucleic Acids Res (2008) 2.14
Modern proteomes contain putative imprints of ancient shifts in trace metal geochemistry. Proc Natl Acad Sci U S A (2006) 2.10
Immune epitope database analysis resource. Nucleic Acids Res (2012) 2.09
The Mycobacterium tuberculosis drugome and its polypharmacological implications. PLoS Comput Biol (2010) 2.07
Outcome of a workshop on applications of protein models in biomedical research. Structure (2009) 2.05
Functional coverage of the human genome by existing structures, structural genomics targets, and homology models. PLoS Comput Biol (2005) 2.04
The Protein Model Portal. J Struct Funct Genomics (2008) 2.01
An ontology driven architecture for derived representations of macromolecular structure. Bioinformatics (2002) 1.97
Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol (2010) 1.97
Biodiversity data should be published, cited, and peer reviewed. Trends Ecol Evol (2013) 1.97
RNA conformational classes. Nucleic Acids Res (2004) 1.92
BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): new policies affecting biomolecular NMR depositions. J Biomol NMR (2008) 1.89
Ten simple rules for reviewers. PLoS Comput Biol (2006) 1.84
Ten simple rules for selecting a postdoctoral position. PLoS Comput Biol (2006) 1.77
Novel computational approaches to polypharmacology as a means to define responses to individual drugs. Annu Rev Pharmacol Toxicol (2011) 1.76
Validation of protein structures for protein data bank. Methods Enzymol (2003) 1.73
History of biological metal utilization inferred through phylogenomic analysis of protein structures. Proc Natl Acad Sci U S A (2010) 1.71
A robust and efficient algorithm for the shape description of protein structures and its application in predicting ligand binding sites. BMC Bioinformatics (2007) 1.70
PROMISCUOUS: a database for network-based drug-repositioning. Nucleic Acids Res (2010) 1.69
Computational biology resources lack persistence and usability. PLoS Comput Biol (2008) 1.65
CE-MC: a multiple protein structure alignment server. Nucleic Acids Res (2004) 1.64
Topic pages: PLoS Computational Biology meets Wikipedia. PLoS Comput Biol (2012) 1.60
New tools and expanded data analysis capabilities at the Protein Structure Prediction Center. Proteins (2007) 1.59
Recommendations of the wwPDB NMR Validation Task Force. Structure (2013) 1.57
Quantifying reproducibility in computational biology: the case of the tuberculosis drugome. PLoS One (2013) 1.56
Ten simple rules for a good poster presentation. PLoS Comput Biol (2007) 1.55
Partitioning protein structures into domains: why is it so difficult? J Mol Biol (2006) 1.51
Biocurators: contributors to the world of science. PLoS Comput Biol (2006) 1.46
A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery. Bioinformatics (2009) 1.46
A large data set comparison of protein structures determined by crystallography and NMR: statistical test for structural differences and the effect of crystal packing. Proteins (2007) 1.44
Toward consistent assignment of structural domains in proteins. J Mol Biol (2004) 1.42
Intrinsic evaluation of text mining tools may not predict performance on realistic tasks. Pac Symp Biocomput (2008) 1.40