Location | Comment
ProteinDegradationTest.m (6) | degradationRate = [0.001 0.01 0.1]; % !Find a reasonable value
txtl_prom_plambda.m (89) | %! make all these reactions conditional on specie availability
txtl_prom_ptet.m (89) | %! make all these reactions conditional on specie availability
txtl_prom_ptet.m (90) | %! has this todo been accomplished? Vipul 2/10/13
txtl_protein_betaGal.m (111) | %! include enzyme concentraction
txtl_prom_ptrc2.m (78) | %! replace these values with correct values
txtl_prom_ptrc2.m (162) | %! make all these reactions conditional on specie availability
txtl_prom_ptet2.m (4) | %! Header needs to be updated (RMM didn't write this file; 29 Sep 2012)
txtl_prom_ptet2.m (5) | %! This file is not properly named; promoter is ptet, not ptet2 ??
txtl_prom_ptet2.m (48) | %! replace these values with correct values
txtl_prom_ptet2.m (77) | %! Looks like lacI is used instead of tetR??? (RMM, 29 Sep 2012)
txtl_prom_ptet2.m (78) | %! I don't see the dimer binding; just the monomer??? (RMM, 29 Sep 2012)
txtl_buffer.m (2) | %! add documentation
txtl_extract.m (2) | %! add documentation
txtl_add_dna.m (325) | % !add error checking for numerical values for the lengths.
txtl_setup_default_basepair_length.m (42) | %! 12/08/12 zoltuz - later on deafaultBasePairs should come from
txtl_setup_default_basepair_length.m (43) | %the config files - that's way tube is provided
txtl_plot.m (86) | %! further refinement of str spliting
txtl_plot.m (103) | %! skip already added proteins and mRNAs to avoid duplicates
txtl_plot.m (347) | %! handle only color expressions
findspecies.m (16) | %! zoltuz 1/10/12 cellfun for speed up: find(cellfun(@(x)
findspecies.m (29) | % !zoltuz 1/10/12 intersect for speed up
txtl_gfp_lookuptable.m (3) | %! zoltuz 1/15/13 make this function configurable (lab independent)
txtl_runsim.m (69) | %! zoltuz 2/4/13 review this part
txtl_adddna.m (321) | % !add error checking for numerical values for the lengths.
txtl_utr_rbs.m (55) | %! 12/8/12 zoltuz - find out why we need the RiboBound here!