Table 1

An overview of model parameters and complexity
Phenotype f d α No. of RMSE No. of selected No. of selected
components genes background variables
Melibiose 2% Rate 0.1 0.99 0.73 5 0.61 30 15
Melibiose 2% Efficiency 0.1 0.99 0.65 4 0.60 30 14
Cupper chloride 0.375mM Rate 0.5 0.99 0.78 6 0.57 31 15
Cupper chloride 0.375mM Efficiency 0.1 0.90 0.51 9 0.52 30 14
NaCl 0.85M Rate 0.1 0.95 0.62 1 0.61 31 14
NaCl 1.25M Rate 0.5 0.95 0.85 2 0.80 30 15
NaCl 0.85M Efficiency 0.1 0.95 0.77 4 0.71 30 15
NaCl 1.25M Efficiency 0.1 0.99 0.67 5 0.60 30 15
Maltose 2% Rate 0.1 0.99 0.63 5 0.60 31 15
Maltose 2% Efficiency 0.1 0.90 0.54 7 0.50 30 15
Galactose 2% Rate 0.1 0.95 0.75 7 0.50 30 16
Galactose 2% Efficiency 0.1 0.95 0.56 7 0.61 30 15
Heat 37oC Rate 0.1 0.99 0.65 6 0.58 30 15
Heat 40oC Rate 0.1 0.99 0.78 6 0.82 30 15
Heat 37oC Efficiency 0.1 0.99 0.51 1 0.59 31 14
Heat 40oC Efficiency 0.5 0.90 0.62 8 0.67 30 15
Sodium arsenite oxide 3.5mM Rate 0.1 0.90 0.59 8 0.54 30 15
Sodium arsenite oxide 5mM Rate 0.1 0.99 0.66 5 0.62 30 15
Sodium arsenite oxide 3.5mM Efficiency 0.1 0.99 0.73 3 0.55 31 14
Sodium arsenite oxide 5mM Efficiency 0.1 0.90 0.51 2 0.63 31 14

The suggested approach select the model parameters at each level of 10-fold cross validation, hence the measure of central tendency is used to summaries the results. For each fitted model mode of selected step length (f), mode of rejection level (d), mode of model complexity (αand no. of components), mean of RMSE on test data, number of selected genes and number of selected background variables are listed.

Mehmood et al.

Mehmood et al. BMC Bioinformatics 2012 13:327   doi:10.1186/1471-2105-13-327

Open Data