Table 4.

Classification of P. aeruginosa transcriptomes from mouse models of infection as: human or in vitro, and human soft tissue or CF sputum

Sample	Human vs. in vitro		Soft tissue vs. CF sputum
	Mean probability human	SD	Mean probability soft tissue	SD
Mouse burn 1	0.07	0.04	0.73	0.17
Mouse burn 2	0.15	0.08	0.72	0.19
Mouse surgical 1	0.72	0.15	0.68	0.19
Mouse surgical 2	0.75	0.12	0.68	0.21
Mouse pneumonia	0.08	0.08	0.67	0.25

For both distinctions (human vs. in vitro and soft tissue vs. CF sputum), feature (gene) selection and model training were repeated 50 times. The mean probability according to the SVM model and its SD were calculated using the Caret package (26). Mean probability is the likelihood that a mouse transcriptome is human (for the human vs. in vitro) or soft tissue (for the soft tissue vs. CF sputum) based on the SVM model as calculated by the Caret package. For example, a mean probability of 1 would indicate that the sample is unambiguously categorized as human for the human vs. in vitro.