TReD

Introduction

TReS/data/DGE_rs/ : save the DGE results and processed DGE results;
prestored:
- ALV_DE.csv (derived from the study of Brian L. Le et al)
- BALF.csv (derived from the study of Brian L. Le et al)
- EXP.csv (derived from the study of Brian L. Le et al)
TReS/data/TWAS_rs/ : save the TWAS results and processed TWAS results;
prestored:
- twas_blood.txt (generated by PrediXcan)
- twas_lung.txt (generated by PrediXcan)
- twas_lymphocytes.txt (generated by PrediXcan)
- twas_spleen.txt (generated by PrediXcan)
TReS/data/LINCS2_beta/ : save the compound signatures downloaded from LINC2 database and processed annotation files;
prestored:
- siginfo_beta.txt (Metadata for level 5 signatures, can be downloaded from LINCS2)
- compoundinfo_beta.txt (metadata for compounds, can be downloaded from LINCS2)
- beta_immuncelline_revised.txt (immune cell lines, can be downloaded from LINCS2)
- level5_beta_trt_cp_n720216x12328.gctx (level 5 compound signatures, can be downloaded from LINCS2)
TReS/data/drugbank/ : save the drugbank vocabulary file (drugbank vocabulary_5.1.10.csv, load from drugbank);
TReS/data/compound_d_immune/ : save the revesal distance computed by us;