TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1117/-:

update plot	correlation	link to info on gene
Rv2396/PE_PGRS41	(cc=0.5174)	info on Rv2396/PE_PGRS41
Rv1646/PE17	(cc=0.5113)	info on Rv1646/PE17
Rv3065/mmr	(cc=0.5073)	info on Rv3065/mmr
Rv3184/-	(cc=0.4719)	info on Rv3184/-
Rv3884c/eccA2	(cc=0.4637)	info on Rv3884c/eccA2
Rv0830/-	(cc=0.4427)	info on Rv0830/-
Rv2950c/fadD29	(cc=0.4345)	info on Rv2950c/fadD29
Rv2639c/-	(cc=0.4339)	info on Rv2639c/-
Rv2957/-	(cc=0.4316)	info on Rv2957/-
Rv3749c/-	(cc=0.4311)	info on Rv3749c/-

Correlation of Rv1117/- with Rv0830/-

Normalized LFCs for Rv1117/-:
(description and provenance of datasets)

	Rv1117/-	Rv0830/-
Fe_supp_jason_reseq	0.325	0.148
low_pH_jason_reseq	0.652	-0.279
NO_jason_reseq	1.302	0.357
B6_jason_reseq	0.628	0.739
MHCII_jason_reseq	0.89	0.519
Isoniazid02	-1.129	-1.003
Rifampicin4	0.249	0.417
Ethambutol3	-0.731	0.027
Meropenem3	-0.321	-0.343
Vancomycin16	-0.215	-0.223
Rv2680_day32	0.432	0.08
H37Rv_KO_MarP	-0.058	0.042
hypoxia_3wks	-0.766	-0.435
hypoxia_6wks	-2.107	-0.159
glycerol	-0.05	-0.859
cholesterol	-0.147	-0.552
AJ	1.449	0.481
Bibs02	0.948	0.367
Bibs02c	1.676	0.202
BL6	-0.049	0.037
BL6a	0.967	0.141
BXD01	0.889	0.167
BXD010	0.198	-0.117
BXD011	-0.323	-0.097
BXD03	0.727	-0.453
BXD04	0.692	-0.127
BXD05	0.086	0.288
BXD06	0.574	-0.154
BXD07	0.525	-0.126
BXD08	0.248	0.018
BXD09	0.195	-0.004
CAST	0.906	0.21
CCcont	0.411	-0.295
DS01	0.385	-0.258
DS02	0.11	0.274
DS04	0.429	-0.103
DS0c	-0.099	0.204
GP01	0.369	0.444
GP02	2.489	1.298
GP0c	0.316	-0.138
NOD	0.251	0.205
NZO	1.211	0.285
PWK	0.566	0.459
H37Rv_KO_CtpC	0.98	0.477
H37Rv_KO_CtpD	-0.532	0.225
H37Rv_KO_Rv1272	1.288	0.56
H37Rv_KO_SugABC	1.45	0.499
H37Rv_KO_MbtN	0.819	-0.078
Trans05	0.339	0.684
macrophage_unactivated	0.095	0.237
IL1	-1.818	-0.564
Rapamycin	-1.292	-0.292
Tcell	0.306	0.274
GMCSF	-1.31	0.185
IFNab	0.163	-0.19
IFNg	-1.686	-0.211
IFNg_GMCSF1	-1.1	-0.066
Rv1432_day32	-0.369	0.023
Rv1565c_day32	0.12	0.242
secA2_input	2.365	-0.204
delta_Rv3594	0.587	-0.341
delta_Rv3717	0.544	-0.507
delta_Rv3811	0.132	-0.656
delta_Rv0954	0.464	-0.682
PonA1	0.542	-0.446
EccD1_KO	0.96	0.967
EspI_KO	1.694	0.034
PE35_KO	1.89	-0.067
PPE68_KO	1.878	0.643
glycerol2	1.418	0.409
lignocerate	0.784	0.269
oleate	1.448	0.668
phosphatidylcholine	0.98	0.655
acetate	0.741	-0.136
glucAc	0.748	-0.005
Rv0950ko	-0.425	0.28
Rv1096ko	-0.495	-0.401
Rv3684ko	-0.57	-0.229
delta_otsA_trehalose	-1.122	0.579