Published in Nucleic Acids Res on October 21, 2008
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The UCSC Genome Browser database: update 2010. Nucleic Acids Res (2009) 16.58
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The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes. Genome Res (2009) 14.90
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NCBI GEO: archive for functional genomics data sets--10 years on. Nucleic Acids Res (2010) 14.38
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Ensembl's 10th year. Nucleic Acids Res (2009) 10.82
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The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. Nucleic Acids Res (2009) 7.33
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The immune epitope database 2.0. Nucleic Acids Res (2009) 6.07
Disease Ontology: a backbone for disease semantic integration. Nucleic Acids Res (2011) 6.03
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Modeling biomedical experimental processes with OBI. J Biomed Semantics (2010) 5.36
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. Nucleic Acids Res (2011) 5.34
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Ensembl Genomes: extending Ensembl across the taxonomic space. Nucleic Acids Res (2009) 5.09
PrimerBank: a resource of human and mouse PCR primer pairs for gene expression detection and quantification. Nucleic Acids Res (2009) 5.03
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MicroScope: a platform for microbial genome annotation and comparative genomics. Database (Oxford) (2009) 3.87
Web services at the European Bioinformatics Institute-2009. Nucleic Acids Res (2009) 3.78
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The IKMC web portal: a central point of entry to data and resources from the International Knockout Mouse Consortium. Nucleic Acids Res (2010) 3.23
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The ctenophore genome and the evolutionary origins of neural systems. Nature (2014) 2.96
OMA 2011: orthology inference among 1000 complete genomes. Nucleic Acids Res (2010) 2.92
Text mining and manual curation of chemical-gene-disease networks for the comparative toxicogenomics database (CTD). BMC Bioinformatics (2009) 2.72
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ELM: the status of the 2010 eukaryotic linear motif resource. Nucleic Acids Res (2009) 2.59
The immune epitope database (IEDB) 3.0. Nucleic Acids Res (2014) 2.50
UniPathway: a resource for the exploration and annotation of metabolic pathways. Nucleic Acids Res (2011) 2.45
Discovery of genes essential for heme biosynthesis through large-scale gene expression analysis. Cell Metab (2009) 2.45
Gene3D: merging structure and function for a Thousand genomes. Nucleic Acids Res (2009) 2.34
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The effects of circumcision on the penis microbiome. PLoS One (2010) 2.15
UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. Nucleic Acids Res (2009) 2.11
The PubChem chemical structure sketcher. J Cheminform (2009) 1.98
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Concept annotation in the CRAFT corpus. BMC Bioinformatics (2012) 1.94
Microbial species delineation using whole genome sequences. Nucleic Acids Res (2015) 1.90
The origins and evolution of the p53 family of genes. Cold Spring Harb Perspect Biol (2009) 1.90
PDBe: Protein Data Bank in Europe. Nucleic Acids Res (2010) 1.88
Human bocavirus can be cultured in differentiated human airway epithelial cells. J Virol (2009) 1.85
ModeRNA: a tool for comparative modeling of RNA 3D structure. Nucleic Acids Res (2011) 1.85
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The airway microbiota in cystic fibrosis: a complex fungal and bacterial community--implications for therapeutic management. PLoS One (2012) 1.80
Fifty thousand years of Arctic vegetation and megafaunal diet. Nature (2014) 1.78
CVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes. Nucleic Acids Res (2009) 1.78
Bayesian modeling of the yeast SH3 domain interactome predicts spatiotemporal dynamics of endocytosis proteins. PLoS Biol (2009) 1.78
Estrogen receptor alpha controls a gene network in luminal-like breast cancer cells comprising multiple transcription factors and microRNAs. Am J Pathol (2010) 1.73
The genome sequence of the rumen methanogen Methanobrevibacter ruminantium reveals new possibilities for controlling ruminant methane emissions. PLoS One (2010) 1.71
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Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi. Proc Natl Acad Sci U S A (2014) 1.70
Touring Ensembl: a practical guide to genome browsing. BMC Genomics (2010) 1.70
Characterizing genetic interactions in human disease association studies using statistical epistasis networks. BMC Bioinformatics (2011) 1.68
FancyGene: dynamic visualization of gene structures and protein domain architectures on genomic loci. Bioinformatics (2009) 1.67
Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis. Nucleic Acids Res (2011) 1.65
Classifying short genomic fragments from novel lineages using composition and homology. BMC Bioinformatics (2011) 1.60
The UCSC Genome Browser. Curr Protoc Bioinformatics (2009) 1.59
SIMAP--a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters. Nucleic Acids Res (2009) 1.58
Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis. Proc Natl Acad Sci U S A (2012) 1.57
Pathway projector: web-based zoomable pathway browser using KEGG atlas and Google Maps API. PLoS One (2009) 1.57
miRSel: automated extraction of associations between microRNAs and genes from the biomedical literature. BMC Bioinformatics (2010) 1.57
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IRESite--a tool for the examination of viral and cellular internal ribosome entry sites. Nucleic Acids Res (2009) 1.54
Comparative and joint analysis of two metagenomic datasets from a biogas fermenter obtained by 454-pyrosequencing. PLoS One (2011) 1.47
Genome-wide expression profiling of five mouse models identifies similarities and differences with human psoriasis. PLoS One (2011) 1.41
PRGdb: a bioinformatics platform for plant resistance gene analysis. Nucleic Acids Res (2009) 1.40
Lateral gene transfer as a support for the tree of life. Proc Natl Acad Sci U S A (2012) 1.40
Rapid identification of high-confidence taxonomic assignments for metagenomic data. Nucleic Acids Res (2012) 1.39
NCBI Peptidome: a new repository for mass spectrometry proteomics data. Nucleic Acids Res (2009) 1.38
Longitudinal Metagenomic Analysis of Hospital Air Identifies Clinically Relevant Microbes. PLoS One (2016) 1.38
Structure and function of the bacterial root microbiota in wild and domesticated barley. Cell Host Microbe (2015) 1.37
TogoWS: integrated SOAP and REST APIs for interoperable bioinformatics Web services. Nucleic Acids Res (2010) 1.37
Inferring hierarchical orthologous groups from orthologous gene pairs. PLoS One (2013) 1.36
A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1. BMC Syst Biol (2010) 1.35
Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution. Biol Direct (2010) 1.35
Gene-based tests of association. PLoS Genet (2011) 1.34
Visualization of multiple alignments, phylogenies and gene family evolution. Nat Methods (2010) 1.34
A multilevel data integration resource for breast cancer study. BMC Syst Biol (2010) 1.32
A type IV modification-dependent restriction enzyme SauUSI from Staphylococcus aureus subsp. aureus USA300. Nucleic Acids Res (2011) 1.31
miRTar: an integrated system for identifying miRNA-target interactions in human. BMC Bioinformatics (2011) 1.30
The role of transposable elements in the evolution of non-mammalian vertebrates and invertebrates. Genome Biol (2010) 1.29
The University of Minnesota Biocatalysis/Biodegradation Database: improving public access. Nucleic Acids Res (2009) 1.24
Clustered patterns of species origins of nature-derived drugs and clues for future bioprospecting. Proc Natl Acad Sci U S A (2011) 1.22
Structure-guided discovery of the metabolite carboxy-SAM that modulates tRNA function. Nature (2013) 1.22
GenomeRNAi: a database for cell-based RNAi phenotypes. 2009 update. Nucleic Acids Res (2009) 1.20
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The COG database: an updated version includes eukaryotes. BMC Bioinformatics (2003) 60.98
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NCBI BLAST: a better web interface. Nucleic Acids Res (2008) 15.14
New models of collaboration in genome-wide association studies: the Genetic Association Information Network. Nat Genet (2007) 13.76
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The sequencing-based typing tool of dbMHC: typing highly polymorphic gene sequences. Nucleic Acids Res (2004) 2.71
OMIA (Online Mendelian Inheritance in Animals): an enhanced platform and integration into the Entrez search interface at NCBI. Nucleic Acids Res (2006) 2.40
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NCBI Reference Sequences: current status, policy and new initiatives. Nucleic Acids Res (2008) 26.04
The variant call format and VCFtools. Bioinformatics (2011) 25.88
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NCBI GEO: mining tens of millions of expression profiles--database and tools update. Nucleic Acids Res (2006) 19.42
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