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 Rv1804c/-

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

	Rv1903/-	Rv1804c/-
Fe_supp_jason_reseq	-0.494	0.204
low_pH_jason_reseq	0.201	-0.729
NO_jason_reseq	0.326	0.84
B6_jason_reseq	0.009	-0.669
MHCII_jason_reseq	-0.026	0.142
Isoniazid02	-0.428	0.172
Rifampicin4	0.715	0.041
Ethambutol3	0.736	0.143
Meropenem3	0.062	2.051
Vancomycin16	-0.377	-0.764
Rv2680_day32	-0.724	-0.643
H37Rv_KO_MarP	0.007	-0.047
hypoxia_3wks	0.108	-0.435
hypoxia_6wks	0.42	-0.069
glycerol	0.853	0.238
cholesterol	0.798	0.208
AJ	0.272	0.714
Bibs02	0.685	-0.151
Bibs02c	0.72	-0.161
BL6	0.643	-0.733
BL6a	0.994	-0.046
BXD01	0.498	-0.157
BXD010	0.819	-0.328
BXD011	0.688	0.268
BXD03	0.833	-1.075
BXD04	0.019	0.332
BXD05	1.199	0.778
BXD06	0.051	-0.046
BXD07	0.645	-0.416
BXD08	0.246	0.081
BXD09	1.085	-0.169
CAST	1.151	0.237
CCcont	0.138	-0.061
DS01	-0.334	-0.139
DS02	-0.087	0.013
DS04	-0.446	-1.081
DS0c	0.478	0.061
GP01	0.354	-1.453
GP02	-0.653	0.139
GP0c	0.286	-0.957
NOD	0.026	0.207
NZO	-0.692	0.256
PWK	0.456	0.475
H37Rv_KO_CtpC	1.599	-0.114
H37Rv_KO_CtpD	2.544	0.522
H37Rv_KO_Rv1272	1.104	0.504
H37Rv_KO_SugABC	-2.204	-1.878
H37Rv_KO_MbtN	0.75	0.347
Trans05	1.641	1.047
macrophage_unactivated	-0.679	1.004
IL1	0.872	0.062
Rapamycin	0.457	0.0
Tcell	0.531	0.485
GMCSF	1.249	0.705
IFNab	-0.227	-0.72
IFNg	0.668	0.714
IFNg_GMCSF1	-0.339	0.496
Rv1432_day32	0.87	0.271
Rv1565c_day32	0.504	-0.063
secA2_input	-1.28	-1.852
delta_Rv3594	0.069	0.095
delta_Rv3717	-0.255	-0.57
delta_Rv3811	0.529	-0.495
delta_Rv0954	0.121	-0.729
PonA1	0.092	-1.204
EccD1_KO	0.579	0.569
EspI_KO	0.707	0.493
PE35_KO	-0.131	0.394
PPE68_KO	0.659	0.739
glycerol2	0.448	0.392
lignocerate	0.756	0.557
oleate	0.069	0.678
phosphatidylcholine	0.448	0.728
acetate	0.687	0.233
glucAc	0.922	0.438
Rv0950ko	0.214	-0.654
Rv1096ko	-1.227	-0.956
Rv3684ko	-0.026	-0.789
delta_otsA_trehalose	-0.832	0.035