The Differential Gene Expression Pattern of Mycobacterium tuberculosis in Response to Capreomycin and PA-824 versus First-Line TB Drugs Reveals Stress- and PE/PPE-Related Drug Targets

Table 3

Functional classes of genes strongly induced by capreomycin and PA-824 relative to other TB drugs. 𝐏 = the chance probability of the number of the genes identified from a given functional category among all genes. Functional classes are based on TubercuList (http://genolist.pasteur.fr/TubercuList/).

Functional class	Induced genes	Induced gene No. (𝑃-value)	All genes in the Class
0 virulence, detoxification, adaptation	Rv2374C Rv1566C	2 (0.275)	212
1 lipid metabolism	Rv2504C Rv3550	2 (0.264)	237
2 information pathways	None	0 (N/A)	232
3 cell wall and cell processes	Rv2688C Rv2878C Rv2254C	6 (0.129)	751
	Rv1986 Rv3452 Rv1687C
4 stable RNAs	None	0 (N/A)	50
5 insertion seqs and phages	Rv2657C	1 (0.333)	147
6 PE/PPE	Rv0354C Rv2634C Rv1646	7 (0.001)	168
	Rv1087 Rv0834C Rv2162C
	Rv3367
7 intermediary metabolism & respiration	Rv0654 Rv1285 Rv2535C	4 (0.018)	898
	Rv2291
8 unknown	None	0 (N/A)	15
9 regulatory proteins	None	0 (N/A)	194
10 and 16 conserved hypotheticals	Rv1364C Rv2466C Rv0830	20 (0.0045)	1157
	Rv1977 Rv0047C Rv2777C
	Rv2413C Rv1929C Rv2749
	Rv0192 Rv0274 Rv0365C
	Rv3189 Rv2304C Rv0367C
	Rv0607 Rv2557 Rv2142C
	Rv3288C Rv2802C