HumanSec

Toolbox for generating protein-secretion genome-scale model for Human.

To test this toolbox and generate a protein-specific genome-scale model you just need to run humanSec.m function. This function needs following inputs:

1. A GEM model (HMR2 or HMR2-drived models). you can find hmr2 model either in "inputs" folder or download it from here: http://www.metabolicatlas.org/downloads/hmr
2. Uniprot ID of your interested protein.
3. Protein-Specific Information Matrix (there is a list of human proteins in excel format in "inputs" folder named PSIM_HUMAN.xlsx). You can call this list using importPsimFromExcel.m function and then use output of this function in humanSec.m function.
4. List of template reactions (there is a list of template reactions in excel format in "inputs" folder named tempRxns_v01.xlsx). You can call this list using importTempRxnsFromExcel.m function and then use output of this function in humanSec.m function.