- Data are download from LINCS2020.
- This data bundle is an expansion to the LINCS2017
- Only compound data are downloaded. other data types are including:
- oe: overexperssion
- sh: knockdown
- crispr: xpr
- misc:
- Gene Infer weights (landmark genes conversion matrix to 11350 genes) could be download from GEO:GSE92743
- GSE92743_Broad_OLS_WEIGHTS_n979x11350.gctx
-
repurposing_drugs from here
-
For this project, we only download compound data
- GCTx: download contrl and treatment of level 3 data (trt_cp, ctr)
- MetaData:
- instinfo: level 3-4
- siginfo: level 5
- geneinfo
- compoundinfo
- cmapPy: read GCTx
- cmapBQ: query LINCS database using bigQUERY
