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 1802unstable76.58
UniProt - The Universal Protein Resource United Kingdom 13605alive1036.07
COG - Clusters of Orthologous Genes United States 11125unstable289.25
WDSPdb - WD40-repeat protein Structure Predictor China 8unstable3.76
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 93unstable9.88
miRBase - microRNA dababase United Kingdom 11326alive853.81
miRNEST - miRNEST Poland 35alive6.93
MEROPS - The peptidase Database United Kingdom 1760unstable111.02
RefSeq - Reference Sequence Database United States 6794unstable207.82
ViralZone - ViralZone Switzerland 76alive12.67
GEO - Gene Expression Omnibus United States 9384unstable325.31
NCBI Bookshelf - NCBI Bookshelf United States 8unstable1.04
Pocketome United States 54alive10.69
GOLD - Genomes On Line Database United States 1646unstable43.39
ViPR - virus pathogene resourse United States 57alive11.40
GyDB - The Gypsy Database Spain 127alive13.83
PhEVER - phylogenetic exploration of virues' evolutionary relationships France 4unstable0.11
Protegen - Protective Antigens United States 28unstable4.06
OpenFluDB - A Database for Human and Animal Influenza Virus Switzerland 17alive2.43
DBatVir - the Database of Bat-Associated Viruses China 5alive1.67
PEDANT - Protein Extraction, Description and ANalysis Tool Germany 523alive32.69
ACLAME - A CLAssification of Mobile genetic Elements Belgium 211alive15.91
IRESite - Internal Ribosome Entry Site Czech Republic 126alive11.11
ViralORFeome - ViralORFeome France 37unstable3.65
GeMInA - Genomic Metadata for Infectious Agents United States 15alive2.12
PANDIT - Protein and Associated Nucleotide Domains with Inferred Trees United Kingdom 65alive5.67
RNA Virus Database United Kingdom 10dead0.00
VIPERdb - Virus Particle Explorer United States 293alive26.64
VirusMINT - viral protein interaction database Italy 124unstable2.63
GISSD - Group I Intron Sequence and Structure Database China 54unstable4.44
Vir-Mir - The viral miRNA prediction database Taiwan 60alive6.47
PairsDB - Pairs Database United Kingdom 17dead0.00
dbRES - dbRES China 20unstable1.16
GIB-V - Genome Information Broker for Viruses Japan 11unstable0.23
ViTa - ViTa Taiwan 56alive5.60
PUMA2 - PUMA2 United States 72dead0.00
DPVweb - Descriptions of Plant Viruses United Kingdom 35alive3.18
INSDC - International Nucleotide Sequence Database Collaboration United Kingdom 157alive26.17
HPMCD - Human Pan-Microbe Communities Database United Kingdom 1alive1.00
Assembly United States 4unstable2.00
DESM - Microbial Knowledge Exploration Systems Saudi Arabia 1unstable0.91
KGCAK - A K-mer based database for genome-wide phylogeny and complexity evaluation China 0unstable0.00
RAID - RNA Association Interaction Database China 34alive11.33
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. 3alive3.00
pVOGs - Prokaryotic Virus Orthologous Groups United States 1alive1.00
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 79alive11.06
3CDB - Chromosome Conformation Capture Database China 1unstable0.42
SeriPort India 0unstable0.00
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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