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 Rv2309c/-

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

	Rv1903/-	Rv2309c/-
Fe_supp_jason_reseq	-0.494	-0.283
low_pH_jason_reseq	0.201	0.012
NO_jason_reseq	0.326	-0.037
B6_jason_reseq	0.009	-0.905
MHCII_jason_reseq	-0.026	-0.575
Isoniazid02	-0.428	1.285
Rifampicin4	0.715	0.1
Ethambutol3	0.736	0.689
Meropenem3	0.062	1.666
Vancomycin16	-0.377	-0.204
Rv2680_day32	-0.724	-0.177
H37Rv_KO_MarP	0.007	0.213
hypoxia_3wks	0.108	-0.542
hypoxia_6wks	0.42	-0.509
glycerol	0.853	0.647
cholesterol	0.798	0.825
AJ	0.272	0.225
Bibs02	0.685	-0.26
Bibs02c	0.72	1.77
BL6	0.643	-0.674
BL6a	0.994	1.356
BXD01	0.498	-0.052
BXD010	0.819	0.639
BXD011	0.688	0.159
BXD03	0.833	-0.121
BXD04	0.019	0.331
BXD05	1.199	0.584
BXD06	0.051	0.372
BXD07	0.645	-0.089
BXD08	0.246	-0.213
BXD09	1.085	0.358
CAST	1.151	0.976
CCcont	0.138	-0.048
DS01	-0.334	0.144
DS02	-0.087	0.646
DS04	-0.446	1.06
DS0c	0.478	0.286
GP01	0.354	0.521
GP02	-0.653	0.0
GP0c	0.286	0.942
NOD	0.026	0.296
NZO	-0.692	0.409
PWK	0.456	0.693
H37Rv_KO_CtpC	1.599	1.385
H37Rv_KO_CtpD	2.544	0.227
H37Rv_KO_Rv1272	1.104	1.217
H37Rv_KO_SugABC	-2.204	-1.36
H37Rv_KO_MbtN	0.75	0.514
Trans05	1.641	0.639
macrophage_unactivated	-0.679	-0.701
IL1	0.872	0.128
Rapamycin	0.457	0.62
Tcell	0.531	-0.29
GMCSF	1.249	-0.177
IFNab	-0.227	0.284
IFNg	0.668	0.198
IFNg_GMCSF1	-0.339	-0.104
Rv1432_day32	0.87	1.304
Rv1565c_day32	0.504	-1.243
secA2_input	-1.28	-2.159
delta_Rv3594	0.069	-0.28
delta_Rv3717	-0.255	-0.732
delta_Rv3811	0.529	0.0
delta_Rv0954	0.121	-0.62
PonA1	0.092	-0.81
EccD1_KO	0.579	0.493
EspI_KO	0.707	-0.245
PE35_KO	-0.131	0.359
PPE68_KO	0.659	0.304
glycerol2	0.448	0.535
lignocerate	0.756	0.604
oleate	0.069	0.13
phosphatidylcholine	0.448	0.585
acetate	0.687	0.933
glucAc	0.922	0.932
Rv0950ko	0.214	0.522
Rv1096ko	-1.227	-0.344
Rv3684ko	-0.026	1.038
delta_otsA_trehalose	-0.832	-0.75