2023 NAR Database Issue: New Databases Overview
Explore the latest additions to the NAR Database collection in 2023. This table provides a quick overview of each new database, including names, URLs, and brief descriptions. Discover new resources for model organism proteomes, and other scientific data.
| Database name | URL | Short description |
|---|---|---|
| A3D Model Organism Database | http://biocomp.chem.uw.edu.pl/A3D2/MODB | Aggregation predictions for model organism proteomes |
| ABC-HuMi | https://www.ccb.uni-saarland.de/abc_humi/ | Biosynthetic Gene Clusters in the Human Microbiome |
| ADC-DB | https://idrblab.org/adcdb/ | Antibody-drug conjugates |
| AgeAnnoMO | https://relab.xidian.edu.cn/AgeAnnoMO/#/ | Multi-omics of animal ageing |
| AGIDB | https://agidb.pro/ | Animal Genotype Imputation DataBase |
| AnimalMetaOmics | https://yanglab.hzau.edu.cn/animalmetaomics# | Multi-omics of animal microbiomes |
| ATLAS | https://www.dsimb.inserm.fr/ATLAS | ATLAS of protein dynamics |
| BioExcel-CV19 | https://bioexcel-cv19.bsc.es/#/ | Molecular Dynamics of Covid-19 proteins |
| BioKA | https://ngdc.cncb.ac.cn/bioka | Biomarker Knowledgebase for Animals |
| CancerProteome | http://bio-bigdata.hrbmu.edu.cn/CancerProteome | The Cancer Proteome |
| CASpedia | http://caspedia.org | Class 2 CRISPR associated enzymes, |
| CDS-DB | http://cdsdb.cloudna.cn/ | Cancer Drug-induced gene expression Signature DataBase |
| CellCommuNet | http://www.inbirg.com/cellcommunet/ | Cell−cell communication analysis from scRNAseq |
| CellSTAR | https://idrblab.org/cellstar | Single-cell Transcriptomic Annotation Resources |
| cfOmics | https://cfomics.ncRNAlab.org/ | Cell-free multi-omics |
| ClinicalOmicsDB | http://trials.linkedomics.org/ | Transcriptomics and cancer clinical trials |
| COLOCdb | https://ngdc.cncb.ac.cn/colocdb | Cross-model colocalization for traits and phenotypes |
| COV2Var | http://biomedbdc.wchscu.cn/COV2Var/ | SARS-CoV-2 genetic variation and consequences |
| CropGS-Hub | https://iagr.genomics.cn/CropGS/ | Crop Genotypes and Phenotypes |
| CROST | https://ngdc.cncb.ac.cn/crost | Comprehensive Repository Of Spatial Transcriptomics |
| dbAPIS | https://bcb.unl.edu/dbAPIS | database of Anti-Prokaryotic Immune System genes |
| DDA | http://www.bioinformaticspa.com/DDA/ | DNA Damage Atlas |
| DiSignAtlas | http://www.inbirg.com/disignatlas/ | Disease signatures based on bulk and single-cell transcriptomics |
| DRMref | https://ccsm.uth.edu/DRMref/ | Cancer drug resistance mechanisms from single cell data |
| EndoQuad | https://EndoQuad.chenzxlab.cn/ | Experimental and predicted DNA G-quadruplexes |
| eRNAbase | http://bio.liclab.net/eRNAbase/index.php | Enhancer RNA (eRNA) in human and mouse |
| FL-circAS | https://cosbi.ee.ncku.edu.tw/FL-circAS/ | Full-length sequences and splicing of circular RNAs |
| FLIBase | http://www.flibase.org | Full length isoforms in cancers and normal tissues |
| FusionNeoAntigen | https://compbio.uth.edu/FusionNeoAntigen | Fusion gene-specific neoantigens |
| FusionPDB | https://compbio.uth.edu/FusionPDB | Fusion protein annotation database |
| gcPathogen | https://nmdc.cn/gcpathogen/ | Global Catalogue of Pathogens |
| GDPF | http://bioinfo.qd.sdu.edu.cn/GDPF/ | Global Distribution of Protein Families |
| HALL | https://ngdc.cncb.ac.cn/hall/index | Human Aging and Longevity Landscape |
| HervD Atlas | https://ngdc.cncb.ac.cn/hervd/ | Human endogenous retroviruses-disease associations |
| HHCDB | http://hhcdb.edbc.org/ | Human heterochromatin regions |
| IMG/PR | https://img.jgi.doe.gov/pr | Plasmid sequences |
| IMP | https://www.bic.ac.cn/IMP | Integrated Medicinal Plantomics |
| iNClusive | https://non-canonical-aas.biologie.uni-freiburg.de/ | Non-canonical amino acids |
| M2OR | https://m2or.chemsensim.fr/ | Molecules to Olfactory Receptors |
| MACC | http://macc.badd-cao.net/ | Metabolite-Associated Cell Communications |
| MAJIQlopedia | https://majiq.biociphers.org/majiqlopedia/ | Human splice junctions |
| MAMI | https://bioinfo.biols.ac.cn/mami/ | Microbiome Atlas of Mothers and Infants |
| MethMarkerDB | https://methmarkerdb.hzau.edu.cn/ | Cancer DNA Methylation Biomarker |
| mHapBrowser | http://mhap.sibcb.ac.cn/ | DNA Methylation Haplotype Browser |
| MINRbase | http://cm.jefferson.edu/MINRbase/ | rRNA-derived fragments (rRFs) |
| MultifacetedProtDB | https://multifacetedprotdb.biocomp.unibo.it/ | Proteins with multiple functions |
| ncRNADrug | http://www.jianglab.cn/ncRNADrug | ncRNAs targeted by drugs or linked to drug resistance |
| NMPFamsDB | http://www.nmpfamsdb.org/ or https://bib.fleming.gr/NMPFamsDB | Novel Metagenome Protein Families |
| NAKB | https://nakb.org | Nucleic Acid Knowledgebase |
| Open Genes | https://open-genes.org/ | Human genes associated with aging and longevity |
| OPIA | https://ngdc.cncb.ac.cn/opia/ | Open Plant Image Archive |
| P10K | https://ngdc.cncb.ac.cn/p10k/ | Protist 10000 Genomes Project |
| PGS-depot | http://www.pgsdepot.net | Polygenic risk scores |
| PhageScope | https://phagescope.deepomics.org | Bacteriophages |
| PharmGWAS | https://ngdc.cncb.ac.cn/pharmgwas | GWAS for drug repurposing |
| PigBioBank | http://pigbiobank.farmgtex.org | Pig genotypes and phenotypes |
| PLAbDab | https://opig.stats.ox.ac.uk/webapps/plabdab/ | Patent and Literature Antibody Database |
| PlantPAD | http://plantpad.samlab.cn | Plant image phenomics and disease |
| PMhub | https://pmhub.org.cn | Plant Metabolite hub |
| PPGR | https://ngdc.cncb.ac.cn/ppgr/ | Resource for Perennial Plant Genomes and Regulation |
| PRMD | http://bioinformatics.sc.cn/PRMD | Plant RNA Modification Database |
| RAVAR | http://www.ravar.bio | RAre Variant Association Repository |
| RefMetaPlant | https://www.biosino.org/RefMetaDB/ | Reference Metabolome Database for Plants |
| Ribocentre-switch | https://riboswitch.ribocentre.org | Riboswitches: Sequence, Structure, Function and Applications |
| RVdb | http://rvdb.mgc.ac.cn | Rhinovirus database |
| SCAN | http://scanatlas.net | Spatiotemporal Cloud Atlas for Neural cells |
| SCAR | http://8.142.154.29/SCAR2023 | Single-cell and Spatially-resolved CAncer Resources |
| scGRN | https://bio.liclab.net/scGRN/ | Single-cell gene regulatory networks in human and mouse |
| scPlantDB | https://biobigdata.nju.edu.cn/scplantdb | Plant scRNA-seq datasets |
| scQTLbase | http://bioinfo.szbl.ac.cn/scQTLbase | Single cell QTLs |
| scATAC-Ref | https://bio.liclab.net/scATAC-Ref/ | Single cell ATAC-seq data |
| scTEA-db | http://www.scTEA-db.org | single cell-based Terminal Exon Annotation database |
| SilkMeta | http://silkmeta.org.cn | Silkworm pan-genome and multi-omic database |
| SingPro | http://idrblab.org/singpro/ | Single cell proteomics |
| SLKB | https://slkb.osubmi.org | Synthetic lethality knowledge base |
| SORC | http://bio-bigdata.hrbmu.edu.cn/SORC | Spatial Omics Resource in Cancer |
| SoyMD | https://yanglab.hzau.edu.cn/SoyMD/#/ | Soybean multi-omics |
| SPDB | https://scproteomicsdb.com/ | Single cell proteomics |
| SPIRE | https://spire.embl.de | Searchable Planetary-scale mIcrobiome REsource |
| StemDriver | http://biomedbdc.wchscu.cn/StemDriver/ | Hematopoietic stem cell differentiation by scRNAseq |
| STOmicsDB | https://db.cngb.org/stomics/ | Spatial transcriptomics |
| TargetGene | https://ngdc.cncb.ac.cn/targetgene/ | Target genes for human genetic variants |
| TCOD | https://ngdc.cncb.ac.cn/tcod | Tropical Crop omics Database |
| Telobase | http://cfb.ceitec.muni.cz/telobase/ | Telomere sequences |
| TETSS | http://xozhanglab.com/TETSS | Transposon (TE)-derived transcription start sites |
| TheMarker | https://idrblab.org/themarker | Therapeutic biomarkers |
| UniTmp | http://www.unitmp.org/ | Transmembrane protein structures and topologies |
| UTexas Aptamer Database | https://sites.utexas.edu/aptamerdatabase/ | Aptamers |
| VarEPS-influ | https://nmdc.cn/influvar/ | Influenza virus variation risk evaluation system |
| ZEBRA | https://www.ccb.uni-saarland.de/brain_atlas | Brain gene expression at single cell resolution |