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 Rv1903/-:

update plot	correlation	link to info on gene
Rv1508A/-	(cc=0.5065)	info on Rv1508A/-
Rv1678/-	(cc=0.4691)	info on Rv1678/-
Rv2309c/-	(cc=0.463)	info on Rv2309c/-
Rv1980c/mpt64	(cc=0.4383)	info on Rv1980c/mpt64
Rv2663/-	(cc=0.4368)	info on Rv2663/-
Rv2778c/-	(cc=0.4353)	info on Rv2778c/-
Rv1928c/-	(cc=0.4351)	info on Rv1928c/-
Rv1804c/-	(cc=0.4186)	info on Rv1804c/-
Rv0799c/-	(cc=0.4136)	info on Rv0799c/-
Rv2425c/-	(cc=0.4124)	info on Rv2425c/-

Correlation of Rv1903/- with Rv1508A/-

Normalized LFCs for Rv1903/-:
(description and provenance of datasets)

	Rv1903/-	Rv1508A/-
Fe_supp_jason_reseq	-0.494	0.608
low_pH_jason_reseq	0.201	0.279
NO_jason_reseq	0.326	0.116
B6_jason_reseq	0.009	-0.172
MHCII_jason_reseq	-0.026	-0.921
Isoniazid02	-0.428	-0.662
Rifampicin4	0.715	-0.36
Ethambutol3	0.736	1.415
Meropenem3	0.062	-0.252
Vancomycin16	-0.377	-0.48
Rv2680_day32	-0.724	-0.352
H37Rv_KO_MarP	0.007	0.509
hypoxia_3wks	0.108	-0.921
hypoxia_6wks	0.42	0.489
glycerol	0.853	-0.974
cholesterol	0.798	-0.19
AJ	0.272	0.36
Bibs02	0.685	-1.407
Bibs02c	0.72	0.243
BL6	0.643	0.497
BL6a	0.994	-0.07
BXD01	0.498	0.131
BXD010	0.819	0.31
BXD011	0.688	-0.3
BXD03	0.833	0.418
BXD04	0.019	0.011
BXD05	1.199	-0.331
BXD06	0.051	0.046
BXD07	0.645	-0.223
BXD08	0.246	-0.122
BXD09	1.085	0.185
CAST	1.151	0.475
CCcont	0.138	-0.21
DS01	-0.334	0.0
DS02	-0.087	-0.584
DS04	-0.446	-0.178
DS0c	0.478	-0.097
GP01	0.354	0.68
GP02	-0.653	0.084
GP0c	0.286	0.182
NOD	0.026	-0.02
NZO	-0.692	-0.751
PWK	0.456	-0.217
H37Rv_KO_CtpC	1.599	0.201
H37Rv_KO_CtpD	2.544	1.846
H37Rv_KO_Rv1272	1.104	1.664
H37Rv_KO_SugABC	-2.204	-1.846
H37Rv_KO_MbtN	0.75	-0.266
Trans05	1.641	0.788
macrophage_unactivated	-0.679	0.385
IL1	0.872	-0.742
Rapamycin	0.457	0.117
Tcell	0.531	0.283
GMCSF	1.249	-0.069
IFNab	-0.227	-0.363
IFNg	0.668	-0.548
IFNg_GMCSF1	-0.339	-0.204
Rv1432_day32	0.87	0.811
Rv1565c_day32	0.504	-0.55
secA2_input	-1.28	-0.612
delta_Rv3594	0.069	-1.848
delta_Rv3717	-0.255	-1.063
delta_Rv3811	0.529	-0.842
delta_Rv0954	0.121	-1.008
PonA1	0.092	-0.374
EccD1_KO	0.579	0.118
EspI_KO	0.707	-0.519
PE35_KO	-0.131	1.038
PPE68_KO	0.659	1.107
glycerol2	0.448	-0.113
lignocerate	0.756	0.138
oleate	0.069	-0.155
phosphatidylcholine	0.448	0.322
acetate	0.687	0.086
glucAc	0.922	0.166
Rv0950ko	0.214	-0.163
Rv1096ko	-1.227	-1.019
Rv3684ko	-0.026	-0.684
delta_otsA_trehalose	-0.832	-2.369