Table 1. Classification of peptides according to qualitative or quantitative differences between activated THP-1 cells infected with M. tuberculosis H37Rv or left uninfected and sampled at Day 1 or Day 5.

Classes	Qualitative definitions	Quantitative definitions
Early infection markers	Detectable in infected Day 1 cells only	Significantly more highly expressed at infected Day 1 vs uninfected Day 1 cells, but not significantly more highly expressed at infected Day 5 vs uninfected Day 5 cells
Sustained infection markers	Detectable in infected Day 1 and Day 5 cells but not in uninfected cells	Significantly more highly expressed at infected Day 1 vs uninfected Day 1 cells and significantly more highly expressed at infected Day 5 vs uninfected Day 5 cells
Clearance markers	Detectable in infected Day 5 cells (i.e. after clearance) only	Significantly more highly expressed at infected Day 5 vs uninfected Day 5, but not significantly more highly expressed at infected Day 1 vs uninfected Day1 cells
Suppressed infection marker	Suppressed in Day 1 infected cells but present in uninfected cells and restored in infected Day 5 (i.e. after clearance)	-