GPIP (Genetic, Pharmacogenomic, and Immune landscapes of cancer Proteins) is a database to provide a comprehensive resource of genetic, pharmacogenomic, and immune landscape of proteins for 31 human cancer types in TCGA.
In GPIP, we provide following data queries:
1) Browse or search proteins or SNPs to find Protein-QTLs across human cancer types;
2) Browse or search proteins or SNPs to find proteins associated with patient survival across human cancer types;
3) Browse or search proteins or drugs to find association between proteins and drug response across human cancer types;
4) Browse or search proteins or cell types to find association between proteins and different cell types of immune cell abundance from four different sources across human cancers;
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1) Protein-QTL module: collected genetic variants which are significantly (FDR < 0.05) associated with protein expression across human cancers.
2) Survival protein-QTL module: collected protein-QTLs which are significantly associated with patients overall survival (KMp < 0.05) across human cancers.
3) Drug response module: collected proteins which are significantly associated with imputed drug response (|Spearman’s correlation| > 0.3 and FDR < 0.05) across human cancers.
4) Immune infiltration module: collected proteins which are significantly associated with immune cell abundance (|Spearman’s correlation| > 0.3 and FDR < 0.05) across human cancers.
| Cancer Type | Number of Samples | Number of Proteins | Protein-QTL pairs | Number of pProteins | Survival protein-QTL pairs | Protein-drug pairs (DrVAEN) | Protein-drug pairs (cancerRxTissue) | Protein-immune cell pairs (ImmuneCellsGSVA) | Protein-immune cell pairs (ImmuCellAI) | Protein-immune cell pairs (TIMER) | rotein-immune cell pairs (CIBERSORT) |
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