药物开发的通用公共数据库

数据库名称 描述 URL
dbSNP SNPs for a wide range of organisms, including >150M human reference SNPs. http://www.ncbi.nlm.nih.gov/snp
dbVar Genomic structural variations (primarily CNVs) generated mostly by published studies of various organisms, including >2.1M human CNVs. http://www.ncbi.nlm.nih.gov/dbvar
COSMIC Primarily somatic mutations from expert curation and genome-wide screening, including >3.5M coding mutations. http://cancer.sanger.ac.uk/cosmic
1000 Genomes Project Genomes of a large number of people to provide a comprehensive resource on human genetic variation, including >2.5K samples. http://www.1000genomes.org
TCGA Genomics and functional genomics data repository for >30 cancers across >10K samples. Primary data types include mutation, copy number, mRNA, and protein expression. https://tcga-data.nci.nih.gov/tcga
GEO Functional genomics data repository hosted by NCBI, including >1.6M samples. http://www.ncbi.nlm.nih.gov/geo
ArrayExpress Functional genomics data repository hosted by EBI, including >1.8M samples. https://www.ebi.ac.uk/arrayexpress
GTEx Transcriptomic profiles of normal tissues, including >7K samples across >45 tissue types. http://www.gtexportal.org
CCLE Genetic and pharmacologic characterization of >1,000 cancer cell lines. http://www.broadinstitute.org/ccle
Human Protein Atlas Expression of >17K unique proteins in cell lines, normal, and cancer tissues. http://www.proteinatlas.org
Human Proteome Map Expression of >30K proteins in normal tissues. http://humanproteomemap.org
StringDB Protein-protein interactions for >9M proteins from >2K organisms. http://string-db.org
ENCODE Protein-DNA interactions, including >1.4K ChIP-Seq experiments across ∼200 cell lines. http://genome.ucsc.edu/ENCODE
Project Achilles Genetic vulnerabilities across >100 genomically characterized cancer cell lines by genome-wide genetic perturbation reagents (shRNAs or Cas9/sgRNAs), including >11.2K genes. http://www.broadinstitute.org/achilles
LINCS Cellular responses upon the treatment of chemical/genetic perturbagen, including >1M gene expression profiles representing >5,000 compounds and >3,500 genes (shRNA and overexpression) in >15 cell lines. http://lincscloud.org
Genomics of Drug Sensitivity in Cancer project Drug sensitivity data of 140 drugs in >700 cancer cell lines. http://www.cancerrxgene.org
ChEMBL Bioactivities for drug-like small molecules, including >10K targets, >1.7M distinct compounds, and >13.5M activities. https://www.ebi.ac.uk/chembl
PubChem Chemical compounds and bioassay experiments, including >60M unique chemical compounds and >1.1M assays. http://pubchem.ncbi.nlm.nih.gov
CMap >6,000 drug gene expression profiles representing 1,309 compounds tested in 3 main cell lines. http://www.broadinstitute.org/cmap
CTRP Links genetic, lineage, and other cellular features of cancer cell lines to small-molecule sensitivity, including 860 cell lines and 461 compounds. http://www.broadinstitute.org/ctrp.v2.2
ImmPort Clinical assessments in immunology along with molecular profiles, including 143 clinical studies/trials and 799 experiments on >22.4K subjects. https://immport.niaid.nih.gov
ClinicalTrials.gov Registry and results database of publicly and privately supported clinical studies, including >201.7K studies. https://clinicaltrials.gov
PharmGKB Genetic variations on drug response, including >3K diseases, >27K genes, and >3K drugs. https://www.pharmgkb.org

CCLE, Cancer Cell Line Encyclopedia; CMap, Connectivity Map; CNVs, copy number variants; COSMIC, catalog of somatic mutations in cancer; CTRP, Cancer Therapeutics Response Portal; dbSNP, Single Nucleotide Polymorphism Database; dbVar, database of genomic structural variation; EBI, European Bioinformatics Institute; ENCODE, Encyclopedia of DNA Elements; GEO, Gene Expression Omnibus; GTEx, Genotype-Tissue Expression; IMMPORT, Immunology Database and Analysis Portal; LINCS, Library of Integrated Network-based Cellular Signatures; NCBI, National Center for Biotechnology Information; SNPs, single-nucleotide polymorphisms; TCGA, The Cancer Genome Atlas.

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