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 Rv0799c/-

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

	Rv1903/-	Rv0799c/-
Fe_supp_jason_reseq	-0.494	-0.33
low_pH_jason_reseq	0.201	-0.507
NO_jason_reseq	0.326	0.0
B6_jason_reseq	0.009	-1.089
MHCII_jason_reseq	-0.026	0.527
Isoniazid02	-0.428	-0.224
Rifampicin4	0.715	0.861
Ethambutol3	0.736	0.303
Meropenem3	0.062	0.0
Vancomycin16	-0.377	0.565
Rv2680_day32	-0.724	-2.674
H37Rv_KO_MarP	0.007	-0.203
hypoxia_3wks	0.108	0.387
hypoxia_6wks	0.42	0.052
glycerol	0.853	-1.021
cholesterol	0.798	-0.13
AJ	0.272	-0.319
Bibs02	0.685	0.4
Bibs02c	0.72	-0.188
BL6	0.643	1.128
BL6a	0.994	1.611
BXD01	0.498	1.365
BXD010	0.819	1.193
BXD011	0.688	0.985
BXD03	0.833	1.67
BXD04	0.019	0.256
BXD05	1.199	1.533
BXD06	0.051	1.014
BXD07	0.645	0.858
BXD08	0.246	1.038
BXD09	1.085	1.171
CAST	1.151	-0.596
CCcont	0.138	1.254
DS01	-0.334	0.287
DS02	-0.087	-0.263
DS04	-0.446	0.698
DS0c	0.478	0.574
GP01	0.354	0.169
GP02	-0.653	-0.347
GP0c	0.286	-0.313
NOD	0.026	0.358
NZO	-0.692	-0.275
PWK	0.456	0.54
H37Rv_KO_CtpC	1.599	0.134
H37Rv_KO_CtpD	2.544	1.38
H37Rv_KO_Rv1272	1.104	-0.781
H37Rv_KO_SugABC	-2.204	-1.449
H37Rv_KO_MbtN	0.75	1.286
Trans05	1.641	1.122
macrophage_unactivated	-0.679	0.057
IL1	0.872	0.371
Rapamycin	0.457	0.687
Tcell	0.531	0.352
GMCSF	1.249	-0.201
IFNab	-0.227	0.193
IFNg	0.668	0.147
IFNg_GMCSF1	-0.339	0.028
Rv1432_day32	0.87	-0.18
Rv1565c_day32	0.504	-0.559
secA2_input	-1.28	-0.416
delta_Rv3594	0.069	-0.941
delta_Rv3717	-0.255	-0.369
delta_Rv3811	0.529	-0.574
delta_Rv0954	0.121	-0.159
PonA1	0.092	0.099
EccD1_KO	0.579	0.049
EspI_KO	0.707	1.392
PE35_KO	-0.131	0.254
PPE68_KO	0.659	0.186
glycerol2	0.448	-0.011
lignocerate	0.756	-0.248
oleate	0.069	-0.169
phosphatidylcholine	0.448	0.387
acetate	0.687	-0.052
glucAc	0.922	-0.648
Rv0950ko	0.214	-1.239
Rv1096ko	-1.227	-1.071
Rv3684ko	-0.026	-1.791
delta_otsA_trehalose	-0.832	1.152