Database

Resource Portal

• Expacy (Swiss Bioinformaics Resource Portal): https://www.expasy.org/

Genome

• gnomAD: https://gnomad.broadinstitute.org/

• Gene Set Enrichment Analysis: https://www.gsea-msigdb.org/gsea/msigdb

Proteome

• Uniprot: https://www.uniprot.org/

• nextProt: https://www.nextprot.org/

• The Human Protein Atlas: https://www.proteinatlas.org/

• Plasma Proteome Database: http://www.plasmaproteomedatabase.org/

• PAXdb: https://pax-db.org/

Proteome Mass Spec

• Proteome Xchange: http://www.proteomexchange.org/

• PRIDE: https://www.ebi.ac.uk/pride/archive/

• MassIVE: https://massive.ucsd.edu/ProteoSAFe/static/massive.jsp

• PeptideAtlas: http://www.peptideatlas.org/

• Panorama Public: https://panoramaweb.org/wiki/home/page.view?name=publish_to_panorama_public

• iProX: https://www.iprox.cn/page/home.html

• jPOST: https://jpostdb.org/

• SRMAtlas: http://www.srmatlas.org/

• SWATHAtlas: http://www.swathatlas.org/

• NIST: https://chemdata.nist.gov/dokuwiki/doku.php?id=start

Spectral Library

• MassIVE-KB: https://massive.ucsd.edu/ProteoSAFe/static/massive-kb-libraries.jsp

Protein Structure

• PDB: https://www.rcsb.org/

• PDBe: https://www.ebi.ac.uk/pdbe/

• Jmol: http://jmol.sourceforge.net/

• AlphaFold Protein Structure Database: https://www.alphafold.ebi.ac.uk/

Post-translational Modification (PTM)

• UniCarb-DB: https://unicarb-db.expasy.org/

• GlyCosmos Portal: https://glycosmos.org/

• GlycoConnect: https://glyconnect.expasy.org/

Chemical Drug Structure

• ZINC: https://zinc.docking.org/

• ChEMBL: https://www.ebi.ac.uk/chembl/

• PubChem: https://pubchem.ncbi.nlm.nih.gov/

• DrugBank: https://go.drugbank.com/

• UniChem: https://www.ebi.ac.uk/unichem/

• 한국화합물은행: https://chembank.org/

Metabolome

• Metabolomics Workbench: https://www.metabolomicsworkbench.org/

• MetaboLights: https://www.ebi.ac.uk/metabolights/

• MetaboBank: https://www.ddbj.nig.ac.jp/metabobank/index-e.html

• GNPS MassIVE: https://gnps.ucsd.edu/ProteoSAFe/static/gnps-splash.jsp

• KMAP: https://kbds.re.kr/KMAP

Cytometry Repository

• FlowRepository: http://flowrepository.org/

• Immport: https://www.immport.org/home

• Image Data Resource: https://idr.openmicroscopy.org/

Functional Annotation

• DAVID: https://david.ncifcrf.gov/home.jsp

Patient-Omics

• GDC Data Portal: https://portal.gdc.cancer.gov/

• ICGC Data Portal: https://dcc.icgc.org/

• TOPMed: https://topmed.nhlbi.nih.gov/

• UK Biobank: https://www.ukbiobank.ac.uk/

Cell Line

• Cancer Cell Line Encyclopedia (CCLE): https://sites.broadinstitute.org/ccle/

Drug Sensitivity Screens

• NCI-60: https://dtp.cancer.gov/discovery_development/nci-60/

• Connectivity Map (CMap): https://www.broadinstitute.org/connectivity-map-cmap

• PRISM Repurposing: https://depmap.org/repurposing/

Disease-Gene Relations

• DisGeNET: https://www.disgenet.org/

• KEGG Disease: https://www.genome.jp/kegg/disease/

• Diseases Database: http://www.diseasesdatabase.com/

• OMIM: https://www.omim.org/

• GWAS Catalog: https://www.ebi.ac.uk/gwas/

Drug Discovery Resources

• Open Targets Platform: https://platform.opentargets.org/

• Pharos: https://pharos.nih.gov/

• Therapeutic Target Database (TTD): https://db.idrblab.net/ttd/

Drug-Target Interaction

• BindingDB: https://www.bindingdb.org/rwd/bind/index.jsp

• PDBbind: http://www.pdbbind.org.cn/index.php

• ChEMBL: https://www.ebi.ac.uk/chembl/

• DrugBank: https://go.drugbank.com/

• STITCH: http://stitch.embl.de/

• Therapeutics Data Commons (KIBA, DAVIS): https://tdcommons.ai/

• PubChem: https://pubchem.ncbi.nlm.nih.gov/

ADMET (Absorption, Distribution, Metabolism, Excretion, Toxicity)

• MoleculeNet (BBBP, TOX21, ToxCast, SIDER, ClinTox): https://moleculenet.org/

• DeepChem: https://deepchem.io/

• Therapeutics Data Commons: https://tdcommons.ai/

Bio Big Data

• 국가바이오빅데이터시범사업(연구포털, Research Portal): https://www.cirn.re.kr/index

• 보건의료연구자원정보센터: https://coda.nih.go.kr/frt/index.do

• 국가바이오데이터스테이션: https://kbds.re.kr/