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 Rv2425c/-

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

	Rv1903/-	Rv2425c/-
Fe_supp_jason_reseq	-0.494	-1.459
low_pH_jason_reseq	0.201	-1.082
NO_jason_reseq	0.326	0.635
B6_jason_reseq	0.009	-1.089
MHCII_jason_reseq	-0.026	-1.055
Isoniazid02	-0.428	-0.627
Rifampicin4	0.715	-0.393
Ethambutol3	0.736	-0.254
Meropenem3	0.062	-0.195
Vancomycin16	-0.377	0.064
Rv2680_day32	-0.724	-0.812
H37Rv_KO_MarP	0.007	0.244
hypoxia_3wks	0.108	-0.327
hypoxia_6wks	0.42	-0.148
glycerol	0.853	0.399
cholesterol	0.798	0.233
AJ	0.272	0.955
Bibs02	0.685	0.649
Bibs02c	0.72	0.235
BL6	0.643	1.008
BL6a	0.994	0.501
BXD01	0.498	0.323
BXD010	0.819	0.605
BXD011	0.688	0.371
BXD03	0.833	-0.009
BXD04	0.019	-0.104
BXD05	1.199	0.21
BXD06	0.051	0.201
BXD07	0.645	0.729
BXD08	0.246	0.009
BXD09	1.085	0.076
CAST	1.151	0.594
CCcont	0.138	0.341
DS01	-0.334	-0.296
DS02	-0.087	-0.463
DS04	-0.446	0.173
DS0c	0.478	-0.671
GP01	0.354	0.149
GP02	-0.653	-0.33
GP0c	0.286	0.474
NOD	0.026	-0.189
NZO	-0.692	0.465
PWK	0.456	0.756
H37Rv_KO_CtpC	1.599	1.982
H37Rv_KO_CtpD	2.544	0.997
H37Rv_KO_Rv1272	1.104	0.364
H37Rv_KO_SugABC	-2.204	0.374
H37Rv_KO_MbtN	0.75	1.325
Trans05	1.641	0.99
macrophage_unactivated	-0.679	-0.464
IL1	0.872	-0.344
Rapamycin	0.457	-0.175
Tcell	0.531	-0.137
GMCSF	1.249	0.09
IFNab	-0.227	-0.683
IFNg	0.668	-0.874
IFNg_GMCSF1	-0.339	-0.11
Rv1432_day32	0.87	0.227
Rv1565c_day32	0.504	-0.058
secA2_input	-1.28	0.357
delta_Rv3594	0.069	0.474
delta_Rv3717	-0.255	0.659
delta_Rv3811	0.529	0.202
delta_Rv0954	0.121	0.401
PonA1	0.092	0.671
EccD1_KO	0.579	0.806
EspI_KO	0.707	0.724
PE35_KO	-0.131	0.846
PPE68_KO	0.659	0.298
glycerol2	0.448	0.471
lignocerate	0.756	1.148
oleate	0.069	-0.187
phosphatidylcholine	0.448	1.036
acetate	0.687	1.325
glucAc	0.922	0.61
Rv0950ko	0.214	0.268
Rv1096ko	-1.227	-0.157
Rv3684ko	-0.026	0.033
delta_otsA_trehalose	-0.832	-0.544