Database Commons a catalog of biological databases

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Database name Data type(s) Major organism(s) Location Citation* Status z-index
NCBI Gene - NCBI Gene United States 1802unstable47.13
UniProt - The Universal Protein Resource United Kingdom 13605unstable835.74
COG - Clusters of Orthologous Genes United States 11125unstable185.42
WDSPdb - WD40-repeat protein Structure Predictor China 8unstable2.40
Platinum - Protein-ligand affinity change upon mutation United Kingdom 0unstable0.00
Viral Genomes - Viral Genomes United States 0unstable0.00
ViRBase - virus-host ncRna interaction database China 0alive0.00
VirHostNet - Virus-Host Network France 93unstable8.89
miRBase - microRNA dababase United Kingdom 11326alive792.82
miRNEST - miRNEST Poland 35alive5.78
MEROPS - The peptidase Database United Kingdom 1760unstable69.14
RefSeq - Reference Sequence Database United States 6794unstable132.11
ViralZone - ViralZone Switzerland 76unstable8.25
GEO - Gene Expression Omnibus United States 9384unstable205.27
NCBI Bookshelf - NCBI Bookshelf United States 8unstable0.56
Pocketome United States 54unstable8.01
GOLD - Genomes On Line Database United States 1646unstable26.06
ViPR - virus pathogene resourse United States 57alive9.50
GyDB - The Gypsy Database Spain 127alive12.45
PhEVER - phylogenetic exploration of virues' evolutionary relationships France 4unstable0.06
Protegen - Protective Antigens United States 28unstable3.52
OpenFluDB - A Database for Human and Animal Influenza Virus Switzerland 17alive2.13
DBatVir - the Database of Bat-Associated Viruses China 5alive1.25
PEDANT - Protein Extraction, Description and ANalysis Tool Germany 523alive29.84
ACLAME - A CLAssification of Mobile genetic Elements Belgium 211alive14.77
IRESite - Internal Ribosome Entry Site Czech Republic 126unstable9.97
ViralORFeome - ViralORFeome France 37unstable3.14
GeMInA - Genomic Metadata for Infectious Agents United States 15unstable1.37
PANDIT - Protein and Associated Nucleotide Domains with Inferred Trees United Kingdom 65unstable3.41
RNA Virus Database United Kingdom 10dead0.00
VIPERdb - Virus Particle Explorer United States 293alive24.42
VirusMINT - viral protein interaction database Italy 124unstable1.52
GISSD - Group I Intron Sequence and Structure Database China 54unstable3.29
Vir-Mir - The viral miRNA prediction database Taiwan 60alive5.88
PairsDB - Pairs Database United Kingdom 17dead0.00
dbRES - dbRES China 20unstable0.69
GIB-V - Genome Information Broker for Viruses Japan 11unstable0.14
ViTa - ViTa Taiwan 56alive4.99
PUMA2 - PUMA2 United States 72dead0.00
DPVweb - Descriptions of Plant Viruses United Kingdom 35alive2.92
INSDC - International Nucleotide Sequence Database Collaboration United Kingdom 157alive22.43
HPMCD - Human Pan-Microbe Communities Database United Kingdom 1unstable0.47
Assembly United States 4unstable0.66
DESM - Microbial Knowledge Exploration Systems Saudi Arabia 1unstable0.44
KGCAK - A K-mer based database for genome-wide phylogeny and complexity evaluation China 0unstable0.00
RAID - RNA Association Interaction Database China 34alive8.50
RNALocate China 0alive0.00
FuzDB - Database of fuzzy protein complexes Hungary 0alive0.00
FAIRDOMHub United Kingdom 0unstable0.00
IMG/VR - Integrated Microbial Genomes / Virus United States 0dead0.00
IRD - Influenza Research Database United States 165dead0.00
MRPrimerV Korea Rep. 3alive2.97
pVOGs - Prokaryotic Virus Orthologous Groups United States 1alive0.99
Proteome-pI - Proteome Isoelectric Point Database Germany 1alive1.00
viruSITE - integrated database for viral genomics Slovak Republic 0alive0.00
HPIDB - Host - Pathogen Interaction Database United States 79alive9.78
3CDB - Chromosome Conformation Capture Database China 1unstable0.40
SeriPort India 0alive0.00
SilkPathDB - Silkworm Pathogen Database China 0unstable0.00
ncbi viral genome database - ncbi viral genome database United States 0dead0.00
* Citations derived from Google Scholar.
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