Database resources of the National Center for Biotechnology Information.

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res (2013) 29.49

Pfam: the protein families database. Nucleic Acids Res (2013) 22.48

GenBank. Nucleic Acids Res (2012) 10.89

ClinVar: public archive of relationships among sequence variation and human phenotype. Nucleic Acids Res (2013) 9.31

PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Res (2013) 7.63

RefSeq: an update on mammalian reference sequences. Nucleic Acids Res (2013) 7.29

Deciphering key features in protein structures with the new ENDscript server. Nucleic Acids Res (2014) 6.82

DrugBank 4.0: shedding new light on drug metabolism. Nucleic Acids Res (2013) 6.73

The UCSC Genome Browser database: 2014 update. Nucleic Acids Res (2013) 6.54

Ribosomal Database Project: data and tools for high throughput rRNA analysis. Nucleic Acids Res (2013) 6.36

The Database of Genomic Variants: a curated collection of structural variation in the human genome. Nucleic Acids Res (2013) 4.42

GenBank. Nucleic Acids Res (2013) 3.47

MEROPS: the database of proteolytic enzymes, their substrates and inhibitors. Nucleic Acids Res (2013) 3.28

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors. Nucleic Acids Res (2013) 2.71

The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse. Nucleic Acids Res (2013) 2.68

Classification of intrinsically disordered regions and proteins. Chem Rev (2014) 2.48

The mouse Gene Expression Database (GXD): 2014 update. Nucleic Acids Res (2013) 1.78

The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. Nucleic Acids Res (2012) 1.66

Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biol (2015) 1.58

Molecular diagnosis of long QT syndrome at 10 days of life by rapid whole genome sequencing. Heart Rhythm (2014) 1.55

The genome portal of the Department of Energy Joint Genome Institute: 2014 updates. Nucleic Acids Res (2013) 1.50

Comparison of multiple displacement amplification (MDA) and multiple annealing and looping-based amplification cycles (MALBAC) in single-cell sequencing. PLoS One (2014) 1.50

FXR antagonism of NSAIDs contributes to drug-induced liver injury identified by systems pharmacology approach. Sci Rep (2015) 1.47

Spatial genomic heterogeneity within localized, multifocal prostate cancer. Nat Genet (2015) 1.47

The genome and developmental transcriptome of the strongylid nematode Haemonchus contortus. Genome Biol (2013) 1.37

Ketone bodies as signaling metabolites. Trends Endocrinol Metab (2013) 1.37

BacMet: antibacterial biocide and metal resistance genes database. Nucleic Acids Res (2013) 1.35

Therapeutic target database update 2014: a resource for targeted therapeutics. Nucleic Acids Res (2013) 1.31

Expression of multiple horizontally acquired genes is a hallmark of both vertebrate and invertebrate genomes. Genome Biol (2015) 1.30

Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota. PLoS One (2013) 1.30

TreeFam v9: a new website, more species and orthology-on-the-fly. Nucleic Acids Res (2013) 1.29

OptiType: precision HLA typing from next-generation sequencing data. Bioinformatics (2014) 1.26

Immunomic, genomic and transcriptomic characterization of CT26 colorectal carcinoma. BMC Genomics (2014) 1.22

Deep sequencing reveals increased DNA methylation in chronic rat epilepsy. Acta Neuropathol (2013) 1.18

DFLAT: functional annotation for human development. BMC Bioinformatics (2014) 1.17

NPInter v2.0: an updated database of ncRNA interactions. Nucleic Acids Res (2013) 1.13

RegTransBase--a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes. BMC Genomics (2013) 1.13

A framework for organizing cancer-related variations from existing databases, publications and NGS data using a High-performance Integrated Virtual Environment (HIVE). Database (Oxford) (2014) 1.12

CottonGen: a genomics, genetics and breeding database for cotton research. Nucleic Acids Res (2013) 1.11

The presence, role and clinical use of spermatozoal RNAs. Hum Reprod Update (2013) 1.11

Searching molecular structure databases with tandem mass spectra using CSI:FingerID. Proc Natl Acad Sci U S A (2015) 1.10

CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts. BMC Genomics (2015) 1.08

Mouse phenome database. Nucleic Acids Res (2013) 1.08

Quantitative network mapping of the human kinome interactome reveals new clues for rational kinase inhibitor discovery and individualized cancer therapy. Oncotarget (2014) 1.07

aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity. Nucleic Acids Res (2013) 1.07

Extending reference assembly models. Genome Biol (2015) 1.06

Evaluating the impact of different sequence databases on metaproteome analysis: insights from a lab-assembled microbial mixture. PLoS One (2013) 1.06

InvFEST, a database integrating information of polymorphic inversions in the human genome. Nucleic Acids Res (2013) 1.03

HIV-1, human interaction database: current status and new features. Nucleic Acids Res (2014) 1.02

AgeFactDB--the JenAge Ageing Factor Database--towards data integration in ageing research. Nucleic Acids Res (2013) 1.02

MultitaskProtDB: a database of multitasking proteins. Nucleic Acids Res (2013) 1.02

Updates on the web-based VIOLIN vaccine database and analysis system. Nucleic Acids Res (2013) 1.01

Negatome 2.0: a database of non-interacting proteins derived by literature mining, manual annotation and protein structure analysis. Nucleic Acids Res (2013) 1.01

MHCcluster, a method for functional clustering of MHC molecules. Immunogenetics (2013) 1.01

Community challenges in biomedical text mining over 10 years: success, failure and the future. Brief Bioinform (2015) 1.00

uORFdb--a comprehensive literature database on eukaryotic uORF biology. Nucleic Acids Res (2013) 0.99

Big data in chemical toxicity research: the use of high-throughput screening assays to identify potential toxicants. Chem Res Toxicol (2014) 0.98

Manteia, a predictive data mining system for vertebrate genes and its applications to human genetic diseases. Nucleic Acids Res (2013) 0.97

Characterization of the Maize Chitinase Genes and Their Effect on Aspergillus flavus and Aflatoxin Accumulation Resistance. PLoS One (2015) 0.97

SuperPred: update on drug classification and target prediction. Nucleic Acids Res (2014) 0.95

CANDO and the infinite drug discovery frontier. Drug Discov Today (2014) 0.94

Lynx: a database and knowledge extraction engine for integrative medicine. Nucleic Acids Res (2013) 0.93

PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools. Nucleic Acids Res (2013) 0.93

Walking the interactome for candidate prioritization in exome sequencing studies of Mendelian diseases. Bioinformatics (2014) 0.93

DNA hypermethylation and DNA hypomethylation is present at different loci in chronic kidney disease. Epigenetics (2013) 0.92

Sequencing the transcriptome of milk production: milk trumps mammary tissue. BMC Genomics (2013) 0.92

Analysis of sequence variations in the suppressor of cytokine signaling (SOCS)-3 gene in extremely obese children and adolescents. BMC Med Genet (2007) 0.92

Studying tumorigenesis through network evolution and somatic mutational perturbations in the cancer interactome. Mol Biol Evol (2014) 0.92

SIMAP--the database of all-against-all protein sequence similarities and annotations with new interfaces and increased coverage. Nucleic Acids Res (2013) 0.91

Evaluation of variant identification methods for whole genome sequencing data in dairy cattle. BMC Genomics (2014) 0.90

The Complete Genome Sequence of Methanobrevibacter sp. AbM4. Stand Genomic Sci (2013) 0.89

Target prediction utilising negative bioactivity data covering large chemical space. J Cheminform (2015) 0.88

Effects of the diet on the microbiota of the red palm weevil (Coleoptera: Dryophthoridae). PLoS One (2015) 0.88

Resources for functional genomics studies in Drosophila melanogaster. Genetics (2014) 0.88

Plant Genome DataBase Japan (PGDBj): a portal website for the integration of plant genome-related databases. Plant Cell Physiol (2013) 0.86

SysPTM 2.0: an updated systematic resource for post-translational modification. Database (Oxford) (2014) 0.86

ALDB: a domestic-animal long noncoding RNA database. PLoS One (2015) 0.84

New mini- zincin structures provide a minimal scaffold for members of this metallopeptidase superfamily. BMC Bioinformatics (2014) 0.84

The UCSC Genome Browser: What Every Molecular Biologist Should Know. Curr Protoc Mol Biol (2014) 0.84

Protein conservation and variation suggest mechanisms of cell type-specific modulation of signaling pathways. PLoS Comput Biol (2014) 0.84

Carbohydrate catabolism in Phaeobacter inhibens DSM 17395, a member of the marine roseobacter clade. Appl Environ Microbiol (2014) 0.84

Metagenomic analysis reveals presence of Treponema denticola in a tissue biopsy of the Iceman. PLoS One (2014) 0.83

Genome sequence of Coxiella burnetii strain Namibia. Stand Genomic Sci (2014) 0.83

GeneProf data: a resource of curated, integrated and reusable high-throughput genomics experiments. Nucleic Acids Res (2013) 0.83

Genome re-sequencing of semi-wild soybean reveals a complex Soja population structure and deep introgression. PLoS One (2014) 0.83

Linking transcriptional changes over time in stimulated dendritic cells to identify gene networks activated during the innate immune response. PLoS Comput Biol (2013) 0.83

The ability of bifidobacteria to degrade arabinoxylan oligosaccharide constituents and derived oligosaccharides is strain dependent. Appl Environ Microbiol (2013) 0.83

Revealing disease-associated pathways by network integration of untargeted metabolomics. Nat Methods (2016) 0.83

Bioinformatics resources for pollen. Plant Reprod (2016) 0.83

Using an isolated rat kidney model to identify kidney origin proteins in urine. PLoS One (2013) 0.82

Systematic Prioritization of Druggable Mutations in ∼5000 Genomes Across 16 Cancer Types Using a Structural Genomics-based Approach. Mol Cell Proteomics (2015) 0.82

Regulation rewiring analysis reveals mutual regulation between STAT1 and miR-155-5p in tumor immunosurveillance in seven major cancers. Sci Rep (2015) 0.82

A tetrahelical DNA fold adopted by tandem repeats of alternating GGG and GCG tracts. Nat Commun (2014) 0.82

The complete genome sequence of the rumen methanogen Methanobacterium formicicum BRM9. Stand Genomic Sci (2014) 0.82

Drug2Gene: an exhaustive resource to explore effectively the drug-target relation network. BMC Bioinformatics (2014) 0.82

HoPaCI-DB: host-Pseudomonas and Coxiella interaction database. Nucleic Acids Res (2013) 0.82

A phylogeny-based benchmarking test for orthology inference reveals the limitations of function-based validation. PLoS One (2014) 0.81

Census-based rapid and accurate metagenome taxonomic profiling. BMC Genomics (2014) 0.81

CSF1R mosaicism in a family with hereditary diffuse leukoencephalopathy with spheroids. Brain (2016) 0.80

Izumo1 and Juno: the evolutionary origins and coevolution of essential sperm-egg binding partners. R Soc Open Sci (2015) 0.80

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res (1997) 665.31

Basic local alignment search tool. J Mol Biol (1990) 659.07

Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet (2000) 336.52

Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol (2000) 128.08

KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res (2000) 117.00

dbSNP: the NCBI database of genetic variation. Nucleic Acids Res (2001) 76.97

KEGG for linking genomes to life and the environment. Nucleic Acids Res (2007) 49.37

A greedy algorithm for aligning DNA sequences. J Comput Biol (2000) 47.89

From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res (2006) 44.35

PatternHunter: faster and more sensitive homology search. Bioinformatics (2002) 35.65

Pfam: clans, web tools and services. Nucleic Acids Res (2006) 34.83

Entrez: molecular biology database and retrieval system. Methods Enzymol (1996) 30.67

Pieces of the puzzle: expressed sequence tags and the catalog of human genes. J Mol Med (Berl) (1997) 26.92

NCBI Reference Sequences: current status, policy and new initiatives. Nucleic Acids Res (2008) 26.04

Surprising similarities in structure comparison. Curr Opin Struct Biol (1996) 22.27

CDD: a Conserved Domain Database for the functional annotation of proteins. Nucleic Acids Res (2010) 19.07

SMART 5: domains in the context of genomes and networks. Nucleic Acids Res (2006) 17.13

Cn3D: sequence and structure views for Entrez. Trends Biochem Sci (2000) 16.98

NCBI GEO: archive for functional genomics data sets--update. Nucleic Acids Res (2012) 15.84

Reactome knowledgebase of human biological pathways and processes. Nucleic Acids Res (2008) 15.69

The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes. Genome Res (2009) 14.90

NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Res (2011) 14.04

New models of collaboration in genome-wide association studies: the Genetic Association Information Network. Nat Genet (2007) 13.76

The TIGRFAMs database of protein families. Nucleic Acids Res (2003) 13.59

The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data. Nucleic Acids Res (2006) 13.44

PID: the Pathway Interaction Database. Nucleic Acids Res (2008) 12.92

McKusick's Online Mendelian Inheritance in Man (OMIM). Nucleic Acids Res (2008) 12.83

Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. Nature (2005) 11.99

UniProt Knowledgebase: a hub of integrated protein data. Database (Oxford) (2011) 11.43

PubChem: a public information system for analyzing bioactivities of small molecules. Nucleic Acids Res (2009) 11.05

CDD: specific functional annotation with the Conserved Domain Database. Nucleic Acids Res (2008) 10.73

The National Center for Biotechnology Information's Protein Clusters Database. Nucleic Acids Res (2008) 10.64

BLAST: improvements for better sequence analysis. Nucleic Acids Res (2006) 9.77

Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res (2010) 9.09

Gene Ontology annotations at SGD: new data sources and annotation methods. Nucleic Acids Res (2007) 9.03

Diversity of human copy number variation and multicopy genes. Science (2010) 8.97

GenBank. Nucleic Acids Res (2011) 8.85

MEDICAL SUBJECT HEADINGS IN MEDLARS. Bull Med Libr Assoc (1964) 8.42

WikiPathways: pathway editing for the people. PLoS Biol (2008) 8.13

The Sequence Read Archive: explosive growth of sequencing data. Nucleic Acids Res (2011) 7.93

The Zebrafish Information Network: the zebrafish model organism database. Nucleic Acids Res (2006) 7.66

The NCBI Taxonomy database. Nucleic Acids Res (2011) 7.06

EcoCyc: a comprehensive view of Escherichia coli biology. Nucleic Acids Res (2008) 7.05

FlyBase: genomes by the dozen. Nucleic Acids Res (2006) 6.96

BioProject and BioSample databases at NCBI: facilitating capture and organization of metadata. Nucleic Acids Res (2011) 6.69

Threading a database of protein cores. Proteins (1995) 5.38

COBALT: constraint-based alignment tool for multiple protein sequences. Bioinformatics (2007) 4.83

The mouse genome database (MGD): new features facilitating a model system. Nucleic Acids Res (2006) 4.52

Public data archives for genomic structural variation. Nat Genet (2010) 3.92

PubChem's BioAssay Database. Nucleic Acids Res (2011) 3.74

Clinical laboratory reports in molecular pathology. Arch Pathol Lab Med (2007) 3.55

Human immunodeficiency virus type 1, human protein interaction database at NCBI. Nucleic Acids Res (2008) 3.54

Allelic genes of blood group antigens: a source of human mutations and cSNPs documented in the Blood Group Antigen Gene Mutation Database. Hum Mutat (2004) 3.34

NCBI Epigenomics: a new public resource for exploring epigenomic data sets. Nucleic Acids Res (2010) 3.27

Domain enhanced lookup time accelerated BLAST. Biol Direct (2012) 2.87

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

GeneTests: an online genetic information resource for health care providers. J Med Libr Assoc (2006) 2.36

The NIH genetic testing registry: a new, centralized database of genetic tests to enable access to comprehensive information and improve transparency. Nucleic Acids Res (2012) 2.35

Mining biological pathways using WikiPathways web services. PLoS One (2009) 2.17

MMDB: 3D structures and macromolecular interactions. Nucleic Acids Res (2011) 2.06

Internet resources in medical genetics. Curr Protoc Hum Genet (2009) 1.34

Clone DB: an integrated NCBI resource for clone-associated data. Nucleic Acids Res (2012) 1.09

Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2013) 5.25

Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2015) 2.44