CancerSSDTs

CancerSSDTs
This repository contains data, codes, and supplementary information used to identify strictly-selective drug targets for 13 cancers.

Requirements
The following tools are needed:

COBRA Toolbox
rFASTCORMICS
CPLEX v12.9.0 or any CPLEX version compatible with MATLAB.

To Obtain Strictly Selective Lethal Sets, Follow the Steps Below:
Initialize COBRA toolbox:
initCobraToolbox
Use rFASTCORMICS to build normal and cancer context-specific models for each tissue. The parameters for this step are provided in BuildCSM.m. Provided models are available in Contex_Specific_Models:
BuildCSM.m
Use RapidSL to identify single and synthetic lethal drug targets for all cancers. A sample script is provided in RunRapidSL.m. All identified selective and non-selective solutions are available in All_Identified_Synthetic_Lethal_Non_Selective:
RunRapidSL.m
Use the FindSSDTs.m function to extract strictly-selective drug targets for each cancer. A sample use of this function is provided in IdentifySelectives.m:
IdentifySelectives.m
All SSDTs identified in this study are available in the Supplementary_File_S1:
This repository represents the data related to the following submitted manuscript:
Manshadi et al.,"Higher order synthetic lethals are keys to minimizing cancer treatment effects on normal cells".