Human: Prune of reactions.master.tsv and exclusion of plant and known microbe-exclusive reactions. Generation of BiomassCompounds.tsv from Recon2 objective function. Human Recon2 objective includes '1-phosphatidyl-1D-myo-inositol', but this exact molecule not in master compounds list (selected one of the variants, a 1-Phosphatidyl-1D-myo-inositol 3-phosphate
, cpd12572). A family of compounds exists for phosphatidylserine (selected cpd00431) and 'sphinomyelin betaine' does not exist. Selected unconjugated sphinomyelin (cpd00156).
Tuberculosis: Generation of Mycobacterial reactions from reactions.master.tsv; exclusion of plant and human reactions, along with reactions that occur environmentally and are shown to explicitly not occur in Mycobacteria.
Microbial: Generation of putative Microbial template from reactions.master.tsv; exclusion of human. Appropriate BiomassCompounds/Biomasses.tsv files under construction, provisionally using GramNegative template.
Human: Prune of reactions.master.tsv and exclusion of plant and known microbe-exclusive reactions. Generation of BiomassCompounds.tsv from Recon2 objective function. Human Recon2 objective includes '1-phosphatidyl-1D-myo-inositol', but this exact molecule not in master compounds list (selected one of the variants, a 1-Phosphatidyl-1D-myo-inositol 3-phosphate , cpd12572). A family of compounds exists for phosphatidylserine (selected cpd00431) and 'sphinomyelin betaine' does not exist. Selected unconjugated sphinomyelin (cpd00156).
Tuberculosis: Generation of Mycobacterial reactions from reactions.master.tsv; exclusion of plant and human reactions, along with reactions that occur environmentally and are shown to explicitly not occur in Mycobacteria.
Microbial: Generation of putative Microbial template from reactions.master.tsv; exclusion of human. Appropriate BiomassCompounds/Biomasses.tsv files under construction, provisionally using GramNegative template.