Database Commons a catalog of biological databases

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Database name Data type(s) Major organism(s) Location Citation* Status z-index
euL1db - European database of L1HS retrotransposon insertions in humans France 2unstable0.93
APASdb - Alternative PolyAdenylation Sites Database China 4unstable1.56
ChiTaRS - Chimeric Transcripts and RNA-Sequencing data Israel 48alive12.00
COXPRESdb - Coexpression Database Japan 230alive25.56
DBTSS - DataBase of Transcriptional Start Sites Japan 767alive51.13
EPD - Eukaryotic Promoter Database Switzerland 32alive16.00
TFClass - Classification of Human Transcription Factors and Mouse Orthologs Germany 48unstable10.56
Gbshape - Genome Browser Database for DNA Shape Annotations United States 8alive4.00
TTSMI - triplex target DNA site Mapping and Integration database Singapore 1alive0.50
UniPROBE - Universal PBM Resource for Oligonucleotide Binding Evaluation United States 363alive45.38
RNAcentral United Kingdom 31alive15.04
tRFdb - Transfer RNA related Fragments Database United States 4alive1.98
miRDB - miRNA target prediction and functional annotations database United States 465alive51.67
DIANA-TarBase - DIANA-TarBase Greece 1513alive137.55
DoRiNA - Database of RNA Interactions in Post-transcriptional Regulation Germany 115alive22.77
lncRNAdb Australia 351alive57.91
LNCipedia - A comprehensive compendium of human long non-coding RNAs Belgium 168unstable30.66
lncRNASNP China 17alive8.16
LncRNAWiki - a wiki-based platform for community curation of human lncRNAs China 15unstable6.22
LncRNA2Target - LncRNA-target association database China 12unstable2.40
InParanoid - ortholog groups with inparalogs Sweden 1253alive103.37
TopFIND - Termini oriented protein Function Inferred Database Canada 98alive16.33
MatrixDB - The extracellular matrix interaction database France 4alive1.98
RaftProt - Mammalian Lipid Raft Proteome Database Australia 0alive0.00
RCSB PDB - RCSB Protein Data Bank United States 853unstable113.73
Genome3D - Annotating Genomes with Structures United Kingdom 42unstable5.70
Platinum - Protein-ligand affinity change upon mutation United Kingdom 0unstable0.00
IMGT - Knowledge resource specialized in the immunoglobulins or antibodies France 22alive4.36
IPD - Immuno Polymorphism Database United Kingdom 323unstable24.22
ComPPI - Compartmentalized Protein-Protein Interaction Database Hungary 0alive0.00
dbSNO - Database for Cysteine S-Nitrosylation Taiwan 52alive10.09
PhosphoSitePlus United States 653alive130.60
DEPOD - Human DEPhOsphorylation Database Germany 0unstable0.00
HIV-1 Human Interaction Database United States 171unstable9.12
neXtProt - Exploring the universe of human proteins Switzerland 237unstable15.64
AFND - Allele Frequency Net Database United Kingdom 39alive9.75
OMIM - Online Mendelian Inheritance in Man United States 3217dead0.00
GRASP - Genome-Wide Repository of Associations between SNPs and Phenotypes United States 28unstable4.67
COSMIC - Catalogue of Somatic Mutations in Cancer United Kingdom 4018alive305.99
The UCSC Cancer Genomics Browser United States 187unstable6.31
arrayMap Switzerland 0unstable0.00
BCCTBbp - Breast Cancer Campaign Tissue Bank Bioinformatics Portal United Kingdom 3alive1.44
CMPD - Cancer Mutant Proteome Database Taiwan 0unstable0.00
Cancer3D United States 10alive4.95
MethHC - A database of DNA Methylation and gene expression in Human Cancer Taiwan 18alive8.91
YM500 - YM500 Taiwan 45alive11.14
VaDE - VarySysDB Disease Edition Japan 0alive0.00
DAA - Digital Ageing Atlas United Kingdom 9alive4.50
Dr.VIS - Viral integration sites China 14unstable1.99
EpilepsyGene - EpilepsyGene database China 3unstable1.26
ADReCS - Adverse Drug Reaction Classification System China 3unstable1.38
Open TG-GATEs - Toxicogenomics Project-Genomics Assisted Toxicity Evaluation System Japan 17dead0.00
T3DB - The Toxin and Toxin Target Database Canada 73alive10.43
AHTPDB - Database of Antihypertensive Peptides India 7alive3.50
PubAngioGen China 0unstable0.00
GO - Gene Ontology Consortium Switzerland 5117alive319.81
DO - Disease Ontology United States 248alive49.10
HGNC - HUGO Gene Nomenclature Committee United Kingdom 612unstable61.20
GeneFriends - GeneFriends:RNAseq United Kingdom 31alive6.20
ImmuCo - a database of gene Co-expression and Correlation in Immune cells China 4unstable1.84
Cyclebase - Cell-cycle Database Denmark 105unstable10.38
MOPED - Multi-Omics Profiling Expression Database United States 5dead0.00
VCGDB - Virtual Chinese Genome Database China 1alive0.33
NGSmethDB - High-quality Methylation Maps Spain 52unstable5.46
miRBase - microRNA dababase United Kingdom 11326alive853.81
miRTarBase - miRNA Target Database Taiwan 899alive149.83
PolymiRTS - Polymorphism in microRNAs and their TargetSites United States 264alive26.14
starBase - starBase China 491unstable63.83
NONCODE - Noncoding RNAs China 637unstable47.77
NPInter - ncRNA Interaction Database China 119alive10.60
RADAR - Rigorously Annotated Database of A-to-I RNA editing United States 52alive17.16
JASPAR Canada 2924alive220.42
TFBSshape - DNA shape features of transcription factor binding sites United States 39alive13.00
BloodChIP Australia 11unstable1.50
DPRP - Database of Phenotype-specific Regulatory Programs Taiwan 0alive0.00
KEGG - Kyoto Encyclopedia of Genes and Genomes Japan 25114alive1395.22
UniCarbKB - UniCarb KnowledgeBase Australia 85alive14.03
Gene3D - Gene3D United Kingdom 194alive21.56
UniHI - Unified Human Interactome Portugal 194alive19.40
GPCRDB - G Protein-coupled Receptor (GPCR) Database Denmark 964alive50.23
Laminin-database Brazil 4unstable1.27
CentrosomeDB Spain 58unstable6.89
Hemolytik - Database of Hemolytic peptides India 13alive4.33
CR Cistrome - Chromatin Regulator Cistrome China 6unstable1.64
Reactome - A Curated Pathway Database United States 615unstable192.70
SMPDB - The Small Molecule Pathway Database Canada 110alive15.40
WormQTLHD - A Web Database for Linking Human Disease to Natural Variation Data in C. elegans. Netherlands 27alive6.75
GeneProf - GeneProf United Kingdom 44unstable8.27
CCDS - Consensus Coding Sequence United States 394unstable13.30
LRG - Locus Reference Genomic United Kingdom 155alive22.14
Manteia France 18alive6.00
AgeFactDB - Ageing Factor Database Germany 8alive2.67
dbPSHP - Database of Positive Selection across Human Populations Hong Kong SAR China 16alive5.33
Selectome - A Database of Positive Selection Switzerland 43alive5.32
Expression Atlas - Expression Atlas United Kingdom 90unstable26.70
The Gene Expression Barcode United States 15alive4.95
PED - Pancreatic Expression Database United Kingdom 75alive7.50
CellFinder Germany 5alive1.67
PPD - Plasma Proteome Database India 53unstable16.43
dbGaP - Database of Genotypes and Phenotypes United States 85unstable13.88
ClinVar - variation-phenotype relationships United States 944unstable154.19
DGV - Database of Genomic Variants Canada 233alive77.67
DECIPHER - Database of Chromosomal Imbalance and Phenotype in Humans using Ensembl Resources. United Kingdom 41unstable3.69
NECTAR - Non-synonymous Enriched Coding muTation ARchive United Kingdom 0alive0.00
FINDbase - Frequency of Inherited Disorders Database Greece 111alive11.10
InvFEST - Human Polymorphic Inversion DataBase Spain 14alive4.67
rSNPBase - A Database for Curated Regulatory SNPs China 35alive11.67
canSAR United Kingdom 70unstable13.30
DriverDB - database for cancer driver gene/mutation Taiwan 18alive6.00
Progenetix Switzerland 179unstable9.73
HbVar - Human Hemoglobin Variants and Thalassemias United States 510alive39.23
HMDD - Human MicroRNA Disease Database China 61alive20.33
SuperPain Germany 3alive1.00
Transformer Germany 8alive2.67
TTD - Therapeutic target database Singapore 232alive45.47
VIOLIN - Vaccine investigation and online information network United States 20alive6.67
SAbDab - The Structural Antibody Database United Kingdom 23unstable6.59
MitoBreak - The mitochondrial DNA breakpoints database Portugal 4alive1.31
ENCODE - Encyclopedia of DNA Elements United States 2053unstable42.64
SINEBase - A Database and Tools for SINE Analysis Russian Federation 27alive6.62
Non-B DB - A Database for Integrated Annotations and Analysis of non-B DNA Forming Motifs United States 68dead0.00
APPRIS - Annotating Principal Splice Isoforms Spain 39alive9.75
HEXEvent - Human EXon splicing Events database United States 14alive3.36
SpliceAid-F Italy 20dead0.00
Spliceosome Database United States 20alive4.85
Factorbook - Factorbook United States 61unstable3.96
ChIPBase China 199unstable28.36
CTCFBSDB - CTCF Binding Sites and Genome Organization Database United States 118alive12.98
HOCOMOCO - Homo Sapiens Comprehensive Model Collection Russian Federation 62alive15.50
SwissRegulon - A Database of Genome-wide Annotations of Regulatory Sites Switzerland 118unstable7.91
NCBI Epigenomics - NCBI Epigenomics United States 51unstable2.38
DIANA-LncBase - Database on miRNA-lncRNA interactions Greece 98unstable20.83
miRGator - miRGator Korea Rep. 228alive24.32
Darned - DAtabase of RNa EDiting Ireland 128alive18.10
MODOMICS - A Database of RNA Modifications Poland 509alive45.81
RNApathwaysDB - RNA Pathways Database Poland 5alive1.24
TOPPR - The Online Protein Processing Resource Belgium 9unstable2.00
ValidNESs - Validated NES-containing proteins, functional NES sites and NES predictions Taiwan 21unstable4.78
EENdb - Database of Engineered EndoNucleases China 35unstable8.31
KIDFamMap - Kinase-inhibitor-disease family map Taiwan 6alive1.50
D2P2 - Database of Disordered Protein Prediction United Kingdom 80alive19.80 - HGNC United Kingdom 785unstable78.50
DGA - Database of Disease and Gene Annotations China 23alive5.75
HBVdb - Hepatitis B Virus database France 16unstable1.24
MetaboLights - A Repository for Metabolomics Studies and Associated Meta-data United Kingdom 161unstable28.66
CPDB - Consensus Pathway Database Germany 368unstable27.14
HMDB - The Human Metabolome Database Canada 2615alive261.50
PrePPI - A structure-informed database of protein-protein interactions United States 301unstable21.67
SynSysNet - Synaptic Proteins Database Germany 18alive4.50
TissueNet - The Database of Human Tissue Protein-Protein Interactions Israel 53alive12.99
H2DB - Heritability Database Annotating with Trait-Associated Genomic Loci Japan 1alive0.25
H-InvDB - H-Invitational Database Japan 109alive12.11
Atlas of Genetics and Cytogenetics in Oncology and Haematology - Atlas of Genetics and Cytogenetics in Oncology and Haematology France 1188alive69.88
GTR - National Institutes of Health Genetic Testing Registry United States 33unstable4.04
dbVar - Database of Genomic Structural Variation United States 41unstable4.92
CellLineNavigator Germany 9alive2.25
GDSC - Genomics of Drug Sensitivity in Cancer United Kingdom 114alive28.22
TP53 mutation database France 30unstable5.70
TSGene - tumor suppressor gene database United States 89unstable5.56
SomamiR United States 27alive6.68
LncRNADisease - Database on lncRNA-disease associations China 267unstable46.06
Allen Brain Atlas United States 67alive16.75
CircaDB - Circadian Database United States 61unstable7.93
GenomeRNAi - A Database for Cell-based and In Vivo RNAi Phenotypes Germany 45alive11.03
HAGR - Human Ageing Genomic Resources United Kingdom 595alive49.58
HemaExplorer Denmark 49unstable9.31
INTERFEROME Australia 224alive27.44
SpermatogenesisOnline - Annotation of Genes/Proteins Involved in Spermatogenesis China 7dead0.00
LUCApedia - Last Universal Common Ancestor United States 10unstable2.20
IUPHAR-DB United Kingdom 144alive23.52
G4LDB - G-quadruplex ligands database China 24unstable3.18
IMGT/HLA United Kingdom 370unstable83.25
InnateDB Canada 339unstable31.26
CIL-CCDB - Cell Image Library United States 14alive3.47
SRA - Sequence Read Archive United States -unstable-
MAPPER2 - Multi-genome Analysis of Positions and Patterns of Elements of Regulation United States 116unstable8.51
SitEx Russian Federation 5alive0.99
DD - Database of Death Domain Korea Rep. 14alive2.80
Histome - The Histone Infobase India 49unstable9.11
Cube-DB - Cube-DB Singapore 3alive0.60
hiPathDB - human integrated Pathway DB with facile visualization Korea Rep. 24alive4.80
HotRegion Turkey 23alive4.60
IntAct United Kingdom 499unstable89.82
PINA - Protein Interaction Network Analysis Australia 281unstable24.24
Predictive networks United States 24unstable4.22
OGEE - Online GEne Essentiality database China 77alive15.40
HGPD - Human Gene and Protein Database Japan 36alive4.50
HaploReg United States 457unstable79.52
SNPeffect - Single Nucleotide Variants Belgium 261alive21.75
DPSC-Cancer - Donnelly - Princess Margaret Screening Centre Cancer Database Canada 24alive4.75
dbDEPC - Database of Differentially Expressed Proteins in Human Cancer China 22unstable2.95
IGDB.NSCLC - Integrated Genomic Database of Non-Small Cell Lung Carcinoma Taiwan 10alive1.98
NCG - Network of Cancer Genes Italy 51alive10.20
SCDE - Stem Cell Discovery Engine United States 23alive4.60
UMD-BRCA1/BRCA2 - Universal mutation database-BRCA1/BRCA2 France 23dead0.00
ADHDgene - Database for Attention Deficit Hyperactivity Disorder China 27alive5.40
ALFRED - The ALlele FREquency Database United States 74unstable2.17
AutismKB China 74unstable9.32
BGMUT - Blood Group Antigen Gene Mutation Database United States 43unstable4.21
DiseaseMeth - Human Disease Methylation Database China 56alive10.75
DistiLD - Database of Diseases and Traits in Linkage Disequilibrium Denmark 17alive3.40
GWASdb - GWASdb Hong Kong SAR China 82alive16.40
SpliceDisease China 27dead0.00
GeneSigDB - Gene Signature DataBase United States 123unstable13.35
GeneWeaver - GeneWeaver United States 54alive10.80
DAMPD - Dragon Antimicrobial Peptide Database South Africa 39unstable4.60
TDR - Tropical Disease Research Argentina 43unstable7.83
OligoGenome - Stanford Human Oligo Genome Project United States 3unstable0.48
PrimerBank United States 1063unstable66.06
HmtDB - Human Mitochondrial DataBase Italy 99unstable5.77
DIGIT - Database of ImmunoGlobulins with Integrated Tools Italy 19alive3.69
DNAtraffic - DNAtraffic Poland 3unstable0.52
MethylomeDB - database containing genome-wide brain DNA methylation profiles United States 33unstable2.64
Gene Wiki - Gene Wiki United States 113unstable4.36
SNPedia United States 67unstable11.39
OrthoDisease - Tracking Disease Gene Orthologs Across 100 Species Sweden 74alive5.69
KGVDB Korea Rep. 4dead0.04
AREsite - AU-rich Elements Site Austria 110alive18.15
DBASS - Databases of Aberrant 3'-ss and 5'-ss in Human Disease Genes Italy 19alive3.17
TcoF-DB - Dragon database of transcription co-factors and transcription factor interacting proteins Saudi Arabia 36unstable5.70
mESAdb - microRNA sequence and expression database Turkey 18alive3.00
RepTar - A Database of Inverse miRNA Target Predictions Israel 33unstable5.12
LocDB - Protein Localization Database for Human and Arabidopsis United States 26unstable3.12
PHOSIDA - phosphorylation site database Germany 567unstable53.30
PolyQ - Polyglutamine Australia 18unstable2.52
IsoBase - IsoRank PPI Network Alignment Based Ortholog Database United States 44alive7.33
RBPDB - The Database of RNA-binding Protein Specificities Canada 133alive22.17
RNA helicase database United States 30alive5.00
SAHG - Structure Atlas of Human Genome Japan 8unstable0.88
IGRhCellID - Integrated Genomic Resources of Human Cell Lines for Identification Taiwan 2alive0.33
SCLD - Stem Cell Lineage Database United States 4unstable0.07
KaPPA-View4 - Kazusa Plant Pathway Viewer Japan 36alive6.00
HitPredict Japan 57alive9.50
KUPS - University of Kansas Proteomics Service United States 21unstable0.56
RegPhos - Regulatory Network in Protein Phosphorylation Taiwan 49alive8.09
REPAIRtoire - A Database of DNA Repair Pathways Poland 24alive3.96
SPIKE - Signaling Pathways Integrated Knowledge Engine Israel 38alive6.33
FANTOM - Functional and taxonomic analysis of metagenomes Japan 144alive9.50
TIARA - Total Integrated Archive of Short-Read and Array database Korea Rep. 15alive2.48
DAnCER - Disease Annotated Chromatin Epigenetics Resource Canada 17alive2.78
dbCRID - Chromosomal Rearrangements In Diseases United States 23unstable0.35
dbDNV - DNV Database Taiwan 11unstable1.49
IGDD India 13unstable1.71
VnD - Variations and Drugs Korea Rep. 7dead0.00
CancerResource Germany 59alive9.73
CaSNP China 17unstable2.13
CCDB - Cervical Cancer Gene Database India 42alive7.00
DDPC - Dragon Database of Genes associated with Prostate Cancer South Africa 26unstable4.03
CADgene - Coronary Artery Disease Gene Database China 42unstable6.30
T1DBase - type 1 diabetes susceptibility Base United Kingdom 178unstable6.53
Pigment_Cell United States 3unstable0.21
EuroDia - EuroDia MicroArray Database Switzerland 9dead0.00
human-gpDB - A database of human GPCRs, G-proteins, Effectors and their interactions Germany 14alive1.98
TRedD - Tandem Repeats Database United States 12unstable0.46
Varietas - Varietas Finland 8dead0.00
GermOnline - GermOnline France 63unstable4.41
GeneCards - GeneCards Israel 900unstable27.00
HyperCAT Norway 20alive2.77
hUbiquitome - ubiquitination cascades in humans China 14dead0.00
CELLPEDIA Japan 10alive1.67
Reactome BioMart - Reactome BioMart United Kingdom 8dead0.00
ICGC - International Cancer Genome Consortium Data Portal Canada 80dead0.00
GETPrime - Gene and Transcript-specific Primer Database Switzerland 28alive4.62
hERGAPDbase Japan 5unstable0.42
LPS-annotate Canada 8dead0.03
ParkDB - Parkinson's disease gene expression database United Kingdom 18dead0.00
CTD - Comparative Toxicogenomics Database United States 1016alive72.57
dbPTB - Database for Preterm Birth United States 16alive3.20
MEDIC - CTD's MEDIC disease vocabulary United States 54alive10.80
Dr. PIAS - Druggable Protein-protein Interaction Assessment System Japan 28unstable3.41
RefPrimeCouch - A Reference Gene Primer CouchApp Germany 1unstable0.18
HypoxiaDB - Hypoxia regulated proteins database India 3alive0.74
RAvariome - Rheumatoid Arthritis Genetic Variants Database Japan 4alive1.00
HTS-DB - High-Throughput Screening DataBase United Kingdom 0alive0.00
IQdb - IQ genetic database China 8unstable0.44
metabolicMine - metabolicMine United Kingdom 10dead0.00
BGDB - Bivalent Genes Database China 4unstable0.06
lncRNome - long noncoding RNA knowledgebase India 37unstable8.79
ESCAPE - Embryonic Stem Cell Atlas from Pluripotency Evidence United States 23alive5.75
CARLSBAD United States 5alive1.23
PhenoDigm - PHENOtype comparisons for DIsease and Gene Models United Kingdom 44alive10.89
hLGDB - The Human lysosome Gene Database Italy 6alive1.49
Variome - Variome Japan 4unstable0.61
MalaCards - The Human Disease Database Israel 97unstable13.58
curatedOvarianData United States 30unstable6.53
YY1TargetDB - Yin Yang 1 Target loci Database Hong Kong SAR China 3alive0.75
T-HOD - Text-mined Hypertension, Obesity and Diabetes candidate gene database Taiwan 9unstable2.09
CrossTope - Structural Data Bank for Cross-Reactivity Brazil 8unstable1.56
PPInterFinder - Protein-Protein Interactions Finder India 17unstable0.34
Nencki Genomics Database - Ensembl Funcgen Enhanced With Intersections, User Data and Genome-wide TFBS Motifs. Poland 5alive1.23
BBGRE - Brain & Body Genetic Resource Exchange United Kingdom 2unstable0.03
T2D@ZJU - Type 2 Diabetes Database at Zhejiang University China 6unstable0.57
CHD@ZJU - Coronary Heart Disease Research Platform China 7unstable0.66
GoSynthetic - Synthetic Biology Workbench Germany 2alive0.50
FSRD - Fungal Stress Response Database Hungary 8alive1.98
pseudoMap Taiwan 10alive2.50
bc-GenExMiner - Breast Cancer Gene-Expression Miner France 13alive3.25
HGV&TB - Database for Human Genes and Genetic Variants associated with Tuberculosis India 0unstable0.00
MelGene - Field Synopsis of Genetic Association Studies in Cutaneous Melanoma Greece 4unstable1.16
CGHub - Cancer Genomics Hub United States 26unstable2.34
RGED - Renal Gene Expression Database China 1alive0.33
RADB - A Database of Rheumatoid Arthritis Related Polymorphisms China 1alive0.33
LiverCancerMarkerRIF Taiwan 2unstable0.56
miRBase Tracker - miRBase Tracker Belgium 14unstable4.25
APADB Germany 8alive2.64
miRror-Suite - A dual view on sets of microRNAs and their targets Israel 33alive4.62
PhenotypeAnnotation Spain 4alive1.33
Osteosarcoma Database - An Osteosarcoma-gene Association Database Germany 4alive1.32
TuberQ Argentina 7unstable1.61
EpimiR - Database of Curated Mutual Regulation Between epigenetic Modifications and miRNAs China 8unstable1.79
ALE-HSA21 - AnaLysis of Expression of HSA21 Italy 5alive1.67
TSLP signaling pathway map - Thymic stromal lymphopoietin signaling pathway map United States 10unstable3.10
ANIA - ANnotation and Integrated Analysis of the 14-3-3 interactome United Kingdom 6unstable0.54
Kin-Driver Argentina 7unstable2.17
miRIAD - Intragenic MicroRNA Database Germany 4unstable0.77
RetinoGenetics China 5alive1.60
CancerEST United Kingdom 3alive1.00
HPVdb - Human Papillomavirus T cell Antigen Database United States 11alive3.67
BioXpress United States 5unstable0.70
miRGate - miRGate Spain 3unstable1.39
DisGeNET - DisGeNET Spain 185alive26.43
CBN - Causal biological network database Switzerland 7unstable3.33
RNA-Seq Atlas Germany 74alive14.80
3DGD - 3D Genome Database China 6unstable1.08
ConsensusPathDB Germany 368unstable26.68
dbNSFP - database for nonsynonymous SNPs' functional predictions United States 261dead1.30
NeuroPedia - Neuropeptide Database United States 15alive2.42
NGS catalog - A Database of Next Generation Sequencing Studies in Humans United States 23unstable1.15
PaGenBase - Pattern Gene Database China 8unstable1.80
PEpiD - Prostate Epigenetic Database China 5unstable0.95
KEGGtranslator - KEGGtranslator Germany 69alive11.38
PhosphoNetworks United States 11alive3.67
KMeyeDB - Keio Mutation eye Databases Japan 2unstable0.26
Genevar - GENe Expression VARiation United Kingdom 231alive32.67
HIPdb - Database of HIV inhibiting peptides India 19alive4.75
HTRIdb - Human Transcriptional Regulation Interaction Database Brazil 45unstable6.57
SNPxGE2 United States 4unstable0.56
SyStemCell China 6unstable0.97
C-It Germany 11alive1.54
TassDB2 - TAndem Splice Site DataBase Germany 45alive4.45
microPIR - microRNA-Promoter Interaction Resource Thailand 17alive3.37
seeQTL United States 58alive11.60
The international dystrophic epidermolysis bullosa patient registry Netherlands 26unstable1.17
The Ruby UCSC API Japan 0unstable0.00
MirSNP - A collection of human SNPs in predicted miRNA target sites. China 67unstable12.60
miRvar - A comprehensive database for genomic variations in microRNAs India 22unstable3.48
TiSGeD - Tissue-Specific Genes Database China 64unstable8.32
RCPedia - a database of retrocopied genes. Brazil 5unstable0.72
CIG-DB - Cancer-related Immunological Gene Database Japan 3unstable0.20
MPID-T2 - MHC-Peptide Interaction Database-TR version 2 Australia 8unstable0.72
miRdSNP - Database of Disease-associated SNPs and MicroRNA target Sites on 3'UTRs of Human Genes United States 59alive11.45
TiPs Italy 1alive0.24
CircuitsDB Italy 59alive8.34
miRCancer - microRNA Cancer Association Database United States 80unstable15.00
UMD-CFTR - UMD-CFTR France 11alive1.54
GEPdb - Genotype-Expression-Phenotype Database Korea Rep. 1alive0.33
mitodyn - MITOchondrial DYNamics variation pages France 4alive2.00
LincSNP China 24alive7.68
MARMAL-AID - A Database for Infinium HumanMethylation450 United Kingdom 16alive3.96
MSigDB - Molecular Signatures Database United States 415unstable60.87
ExportAid - Database of RNA elements regulating nuclear RNA export in mammals Italy 1alive0.50
OncomiRDB(Tsinghua) - A Database for Oncogenic & Tumor-Suppressive MicroRNAs China 18alive5.76
LOVD - Leiden Open Variation Database France 33dead0.00
SNP@lincTFBS - SNP in human lincRNA TFBS database China 3alive0.96
dbCerEx - database of Cervical Cancer Gene Expression China 0dead0.00
SurvExpress Mexico 37unstable6.47
dbGSH - databaseof cysteine S-glutathionylation (GSH) sites Taiwan 25alive8.25
GPCR-RD - A Database For Experimental Restaints Of GPCRs United States 38alive5.43
DetoxiProt - An integrated database of detoxification proteins China 3unstable0.43
hmChIP United States 28alive4.67
hPDI - Human Protein-DNA Interactome database United States 41alive5.68
HSC-explorer - hematopoietic stem cell explorer Germany 6unstable1.32
CLIPdb China 0alive0.00
INstruct United States 27alive6.68
dbCPCO - dbCPCO Canada 14alive1.98
FinDis - Finnish Disease Database Finland 7alive1.75
IRView - Database and viewer of interacting regions (IRs) in protein sequences Japan 1alive0.20
IthaGenes - Interactive archive of all sequence variations affecting haemoglobin disorders Cyprus 5alive1.63
Liverome - A database of liver cancer-related gene lists Korea Rep. 19alive3.17
lnCeDB - lnCeDB India 15dead0.00
Hoppsigen - Homologous Processed Pseudogenes database France 44unstable0.55
NPRD - Nucleosome Positioning Region Database Russian Federation 20alive1.65
ECgene - ECgene Korea Rep. 167unstable9.60
SpliceInfo Taiwan 37alive3.08
DoOP - Database of Orthologous Promoters Hungary 37unstable2.68
TRED - Transcriptional Regulatory Element Database United States 155alive12.40
HuSiDa - human siRNA database Germany 43dead0.00
PolyA_DB United States 83alive6.92
RNAdb Australia 290unstable16.19
siRNAdb Sweden 55alive4.58
SPD - Secreted Protein Database China 119unstable5.95
TPMD - Taiwan Polymorphic Marker Database Taiwan 6unstable0.38
GenDiS - Genomic Distribution of Protein Structural Domain Superfamilies India 16alive1.33
CORG - Comparative Regulatory Genomics Germany 84dead0.00
GeneNet - The GeneNet system Russian Federation 68alive5.61
DED - Database of Evolutionary Distances United States 6dead0.00
UCSC Proteome Browser - UCSC Proteome Browser United States 51alive4.25
GALA - Genome ALignments and Annotations United States 84alive6.00
dbERGE - the database of Experimental Results on Gene Expression United States 18alive1.50
ChimerDB Korea Rep. 86unstable5.71
H-DBAS - Human-transcriptome Database for Alternative Splicing Japan 80alive8.00
deepBase - deepBase China 102unstable5.25
HHMD - Human Histone Modification Database China 42unstable5.46
L1Base Germany 78unstable5.00
DG-CST - Disease Gene Conserved Sequence Tags Database Italy 17alive1.40
HCAD - Human Chromosome Aberration Database Spain 10dead0.00
FESD - Functional Element SNPs Database Korea Rep. 35dead0.00
CGED - Cancer Gene Expression data Japan 46dead0.00
5'SAGE - 5'-end Serial Analysis of Gene Expression database Japan 17dead0.00
GeneTide - Gene Terra Incognita Discovery Endeavor Israel 10dead0.00
H-ANGEL - Human Anatomic Gene Expression Library Japan 24dead0.00
SIEGE - Smoking Induced Epithelial Gene Expression United States 28dead0.00
Organelle DB - A Database of Organelles and Protein Complexes United States 38alive3.17
MITOMAP - A database for the human mitochondrial genome United States 325alive26.81
DP - Dynamic Proteomics Israel 15dead0.00
HLungDB - Human Lung Cancer Database China 48dead0.14
HRTBLDb - Hormone Receptors Target Binding Loci Database United States 9dead0.00
SelTarbase Germany 42alive6.00
PLANdbAffy - probe-level annotation database for Affymetrix expression microarrays Russian Federation 28alive3.96
VBASE2 - VBASE2 Germany 104alive8.67
HUMHOT - Human Meiotic Recombination Hot Spots India 5dead0.00
The imprinted gene and parent-of-origin effect database New Zealand 551unstable23.20
ISfinder - Insertion Sequence finder France 455unstable11.17
Transterm New Zealand 108alive6.91
HOLLYWOOD United States 71alive6.39
ABS - database of Annotated regulatory Binding Sites from orthologous promoters Spain 68alive6.18
cisRED - cisRED Canada 112unstable6.92
TiProD China 27dead0.00
ARED Saudi Arabia 928unstable45.82
Argonaute Germany 88alive8.00
GRSDB - ‘G’-Rich Sequences DataBase United States 80alive6.98
miRNAMap - A database of experimentally verified microRNAs and miRNA target genes Taiwan 359alive32.64
RNAi Codex United States 48alive4.36
snoRNA-LBME-db France 297unstable7.29
LOCATE - subcellular localization database Australia 87alive7.91
NOPdb - Nucleolar Proteome Database United Kingdom 96dead0.00
UCbase & miRfunc - Ultraconserved sequences data and miRNA function United States 58dead0.00
miROrtho - The catalogue of animal microRNA genes Switzerland 55alive6.88
NRED - Noncoding RNA Expression Database Australia 152alive19.00
Degradome - The Degradome database Spain 107dead0.00
LGICdb - Ligand-Gated Ion Channel database United Kingdom 18alive1.64
OKCAM - Ontology for Cell Adhesion Molecules United States 10unstable1.16
SysZNF - the C2H2 zinc finger gene database Germany 31unstable0.93
SWISS-MODEL - The SWISS-MODEL Repository Switzerland 7583unstable186.66
AS-ALPS - Alternative Splicing-induced Alteration of Protein Structure Japan 25unstable2.97
ISED - Influenza Sequence and Epitope Database Korea Rep. 11alive1.38
PIG - Pathogen Interaction Gateway United States 55unstable1.86
PIPs - human protein–protein interaction prediction database United Kingdom 114alive14.25
VirusMINT - viral protein interaction database Italy 124unstable2.48
PID - Pathway Interaction Database United States 593unstable70.42
CleanEST Korea Rep. 14alive1.73
EVOG - Evolution Visualizer for Overlapping Genes Korea Rep. 12alive1.50
ExDom - ExDom United States 10unstable0.36
HPRD - Human Protein Reference Database India 3067unstable203.74
Human Proteinpedia India 65unstable7.56
BodyParts3D Japan 30dead0.00
HGVbaseG2P - The Human Genome Variation database United Kingdom 63alive7.88
SNPLogic United States 26unstable1.27
VarySysDB - VarySysDatabase Japan 16alive1.98
CTdatabase - Cancer-Testis Database Brazil 116unstable13.77
MoKCa - Mutations, Oncogenes, Knowledge & Cancer United Kingdom 34alive4.21
AutDB - Autism Spectrum Disorders database United States 121unstable13.76
ERGR - ethanol-related gene resource United States 32dead0.00
G2Cdb - Genes to Cognition database United Kingdom 41alive4.97
MDPD - Mutation Database for Parkinson's Disease Singapore 15unstable1.16
RAPID - Resource of Asian Primary Immunodeficiency Diseases India 33unstable3.75
Sys-BodyFluid China 57unstable1.71
SysPIMP China 16dead0.00
CLDB - Cell Line Data Base Italy 61alive7.63
YH - YanHuang China 30alive3.60
microTranspoGene - The influence of Transposed Elements (TEs) on the biogenesis of microRNAs Israel 56alive6.22
TranspoGene - TranspoGene Israel 56alive6.22 - and Expression United States 1199alive131.89
PharmGKB - The Pharmacogenomics Knowledgebase United States 67unstable2.01
CEBS - Chemical Effects in Biological Systems United States 106unstable10.36
PubMeth Belgium 127alive13.97
MethyCancer - The Database of Human DNA Methylation and Cancer China 75alive8.33
CanGEM - Cancer GEnome Mine Finland 35unstable2.26
F-SNP - The Functional Single Nucleotide Polymorphism database Canada 242alive26.35
MSY Breakpoint Mapper - A Database of Sequence-tagged Sites in Defining Naturally Occurring Deletions in the Human Y Chromosome United States 19alive2.09
Evola - Database of Evolutionary Features of Human Genes Japan 35alive3.89
IDBD - Infectious Disease Biomarker Database Korea Rep. 18alive1.96
piRNABank - A web resource on classified and clustered Piwi-interacting RNAs India 111unstable11.22
Vir-Mir - The viral miRNA prediction database Taiwan 60alive6.47
ChromDB - The chromatin database United States 72unstable4.80
Greglist - Database of G-quadruplex Regulated Genes China 43unstable3.58
QuadBase - QuadBase India 71unstable7.26
PReMod - Predicted Regulatory Modules Canada 94alive9.40
Pseudogene United States 115unstable3.11
SNPSTR - microsatellite marker and tightly linked SNPs United Kingdom 31alive3.01
VEB - VISTA Enhancer Browser United States 340unstable15.64
GenomeTrafac - GenomeTrafac United States 25alive2.50
D-HaploDB - The Definitive Haplotype Database Japan 9unstable0.37
PolyDoms United States 58alive5.80
Snap - Single Nucleotide Polymorphism Annotation Platform Denmark 32alive3.17
CancerGenes - CancerGenes United States 151alive14.95
PharmGED - Pharmacogenetic Effect Database Singapore 8dead0.00
MAPU - Max-Planck Unified proteome database Germany 53alive5.30
GAN - Gene Aging Nexus United States 38unstable1.60
EPConDB - EPConDB United States 15alive1.50
OncoDB.HCC - Oncogenomic Database of Hepatocellular Carcinoma Taiwan 61alive6.04
HSPD - Hedgehog Signaling Pathway Database United States 3dead0.00
GeneSpeed - GeneSpeed database United States 10dead0.00
eSLDB - eSLDB Italy 45alive4.50
GlycoMapsDB - GlycoMapsDB Germany 46alive4.60
TBestDB - Taxonomically Broad EST Database Canada 84alive8.32
QTL MatchMaker United States 5unstable0.33
CTGA - Catalogue of Transmission Genetics in Arabs United Arab Emirates 42alive3.82
HPtaa database China 18unstable0.77
ITTACA - Integrated Tumor Transcriptome Array and Clinical data Analysis France 43alive3.91
CAGE - Cap-analysis gene expression Japan 76alive6.91
PeptideAtlas United States 839alive75.51
MitoP2 - An integrative tool for the analysis of the mitochondrial proteome Germany 156dead0.00
OncomiRdbB - Oncogenic miRNA database India 1alive0.32
NetworKIN - A Resource for Exploring Cellular Phosphorylation Networks Canada 195alive21.67
DisProt - Database of Protein Disorder United States 838alive69.14
GenBank - GenBank United States 46415unstable710.73
HIV-1, human interaction database - Human Immunodeficiency Virus Type 1 (HIV-1), Human Interaction Database United States 386unstable21.02
RBP-Var China 0alive0.00
MERAV - Metabolic gEne RApid Visualizer United States 0alive0.00
TCGASpliceSeq - TCGASpliceSeq United States 0alive0.00
Aging Chart Russian Federation 0unstable0.00
CRN - Cancer RNA-Seq Nexus Taiwan 0alive0.00
UET - Universal Evolutionary Trace United States 1alive0.98
Lynx United States 0alive0.00
MutationAligner - A Resource of Recurrent Mutation Hotspots in Protein Domains in Cancer United States 0unstable0.00
DGIdb - Drug-Gene Interaction Database United States 78unstable16.77
DIANA-miRGen - DIANA-miRGen Greece 303unstable27.57
SORFS.ORG Belgium 2alive1.96
BreCAN-DB India 0unstable0.00
piRNA cluster db - piRNA cluster database Germany 29alive5.80
iGNM - Gaussian Network Model Database United States 116alive9.67
WeGET - Weighted Gene Expression Tool and database Netherlands 0alive0.00
PCOSKB - KnowledgeBase on Polycystic Ovary Syndrome India 1alive0.98
SugarBindDB - SugarBind Database Switzerland 10alive2.50
SEA - Super-Enhancer Archive China 1alive0.99
Start2Fold Belgium 1alive1.00
hPSCreg - human pluripotent stem cell research community Germany 1alive1.00
DASHR - Database of small human noncoding RNAs United States 1alive1.00
WITHDRAWN - Database of withdrawn and discontinued drugs Germany 1alive0.99
miRNASNP - microRNA-related Single Nucleotide Polymorphisms China 145alive27.84
miRSponge - Experimentally validated miRNA Sponges database China 1unstable0.47
MGDB_2 - Melanoma Gene Database China 0unstable0.00
RegNetwork - Regulatory Network Repository United States 0alive0.00
DENdb - Dragon ENhancers database Saudi Arabia 1unstable0.46
MetazSecKB - Metazoa (Human/Animal) Secretome and Subcellular Proteome KnowledgeBase United States 0alive0.00
NNTC - National NeuroAIDS Tissue Consortium United States 0unstable0.00
SHIELD - Shared Harvard Inner Ear Laboratory Database United States 0alive0.00
HMA - Human Metabolic Atlas Sweden 3alive1.49
EpiFactors - EpiFactors Russian Federation 3alive1.49
NeuroTransDB - Highly Curated and Structured Transcriptomic Metadata for Neurodegenerative Diseases Germany 1unstable0.12
FARE-CAFE - Database of Functional and Regulatory Elements of Cancer-Associated Fusion Events Taiwan 1unstable0.38
RBCC - Red Blood Cell Collection Hungary 1alive0.50
OCDB - Obsessive-Compulsive Disorder Database Italy 1unstable0.29
HCSD - Human Cancer Secretome Database Sweden 1unstable0.47
dbSUPER - a database of super-enhancers in mouse and human genome China 2alive1.92
ccmGDB - Cancer Cell Metabolism Gene DataBase United States 2unstable0.44
SynLethDB Singapore 1unstable0.93
IID - Integrated interactions database Canada 1alive1.00
BloodSpot Denmark 0alive0.00
dbMAE - The database of autosomal monoallelic expression United States 1alive1.00
rVarBase China 28alive9.24
Colorectal Cancer Atlas Australia 1alive1.00
OpenTein - Open Teratoma Investigation Japan 0alive0.00
KLIFS Netherlands 2alive1.98
RMBase - RNA Modification Base China 2unstable1.68
Metabolomics Workbench United States 0alive0.00
SIGNOR - SIGnaling Network Open Resource Italy 2alive1.96
DIDA - DIgenic diseases DAtabase Belgium 1alive1.00
Lnc2Cancer China 2unstable1.88
GtoPdb - IUPHAR/BPS Guide to PHARMACOLOGY United Kingdom 2alive1.96
MitoCarta - An Inventory of Mammalian Mitochondrial Genes United States 2unstable1.40
DESSCD - Dragon Exploration System for Sickle Cell Disease Saudi Arabia 2unstable0.46
dPORE-miRNA - Dragon Database of Polymorphic Regulation of miRNA genes Saudi Arabia 25unstable3.96
DESMSCI - Marine sponge compounds interactions Saudi Arabia 5unstable1.15
DESTAF - Dragon Exploration System for Toxicants and Fertility Saudi Arabia 3unstable0.55
piRNAQuest - searching the piRNAome for silencers India 4alive1.32
WikiCell China 8unstable1.52
AlzBase - an integrative database for gene dys-regulation in Alzheimer’s disease China 5alive5.00
MTD - mammalian transcriptomic database China 0alive0.00
HGMD - The Human Gene Mutation Database United Kingdom 2655alive131.42
BIG Data Center - BIG Data Center for Life & Health Sciences China 12alive12.00
GTRD - Gene Transcription Regulation Database Russian Federation 0alive0.00
LNCediting United States 0unstable0.00
miRPathDB - miRNA Pathway Dictionary Database Germany 1dead0.00
POSTAR - POST-trAnscriptional Regulation China 1unstable0.95
R-loopDB Singapore 0alive0.00
SNP2TFBS Switzerland 0alive0.00
TFBSbank United Kingdom 0unstable0.00
ADPriboDB - The Database of ADP-ribosylated proteins United States 0alive0.00
Membranome - Membrane Proteome United States 1unstable0.65
WERAM - Writers, Erasers and Readers of Acetylation & Methylation China 1alive1.00
COEXPEDIA Korea Rep. 0alive0.00
HIPPIE - Human Integrated Protein-Protein Interaction rEference Spain 49alive12.25
3DSNP China 0unstable0.00
Cistrome DB - Cistrome Data Browser China 0alive0.00
GenomeCRISPR Germany 0unstable0.00
HipSci - Human Induced Pluripotent Stem Cells Initiative United Kingdom 0alive0.00
REDIportal Italy 1alive1.00
AAgAtlas China 0alive0.00
mirDNMR China 1unstable0.72
denovo-db United States 0alive0.00
dbDEMC - database of Differentially Expressed MiRNAs in human Cancers China 54unstable2.85
dbSAP - Single Amino Acid Polymorphism Database China 0alive0.00
IGSR - The International Genome Sample Resource United Kingdom 1alive1.00
HPO - Human Phenotype Ontology United States 975alive108.33
NSDNA - The Nervous System Disease NcRNAome Atlas China 0unstable0.00
KERIS - The kaleidoscope of gene responses to inflammation among species United States 0alive0.00
SZGR - Schizophrenia Gene Resource United States 72dead0.00
Exposome-Explorer France 1alive0.99
dbWGFP China 1unstable0.91
CoReCG - Colon Rectal Cancer Gene Database India 0alive0.00
HLA-ADR - Human leukocyte antigens Adverse Drug Reaction Database United Kingdom 2alive2.00
GESDB - Genetic Epidemiology Simulation Database Taiwan 1unstable0.34
SinEx DB - SinEx DATABASE Chile 0alive0.00
SlideBase Denmark 0alive0.00
MDM-Portal - Medical Data Models Germany 7dead0.00
CCSI - Chromatin–Chromatin Spatial Interaction China 0unstable0.00
Wikidata United States 4dead0.00
CSCdb - Cancer stem cells database China 0alive0.00
HNdb - Head and Deck Database Brazil 0alive0.00
BRONCO - Biomedical entity Relation ONcology COrpus Korea Rep. 7alive7.00
PepPSy France 0alive0.00
Tfcheckpoint - Transcription Factor Checkpoint Norway 8alive2.00
Harmonizome United States 5unstable4.45
TMC-SNPdb - Tata Memorial Centre-SNP data base India 1alive1.00
KDD - Kawasaki Disease Database Korea Rep. 0alive0.00
Onco-Regulon India 0alive0.00
peptiCKDdb Germany 0alive0.00
CaspNeuroD United States 0alive0.00
KTCNlncDB Poland 0alive0.00
RAIN - RNA–protein Association and Interaction Networks Switzerland 3unstable2.22
PDID - Protein–Drug Interaction Database Canada 2alive1.92
EpimiRBase Ireland 4unstable3.56
lnCaNet Australia 6alive6.00
BISQUE - Biological Sequence Exchange United States 1alive1.00
dbDSM - database of Deleterious Synonymous Mutation China 1alive1.00
MINTbase United States 23dead0.00
PhenoScanner United Kingdom 6alive6.00
SSBD - Systems Science of Biological Dynamics database Japan 7alive3.50
LncVar - genetic variation associated with long non-coding genes China 2alive2.00
LD Hub United Kingdom 12alive11.88
NaviCom - Connects data to network maps France 12dead0.00
GVM - Genome Variation Map China 0alive0.00
VISTA Enhancer Browser - VISTA Enhancer Browser whole genome enhancer browser United States 0dead0.00
* Citations derived from Google Scholar.