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 Rv1190/-:

update plot	correlation	link to info on gene
Rv2208/cobS	(cc=0.5103)	info on Rv2208/cobS
Rv0590A/-	(cc=0.4855)	info on Rv0590A/-
Rv3353c/-	(cc=0.4852)	info on Rv3353c/-
Rv2281/pitB	(cc=0.4847)	info on Rv2281/pitB
Rv0906/-	(cc=0.4783)	info on Rv0906/-
Rv0376c/-	(cc=0.4777)	info on Rv0376c/-
Rv2237/-	(cc=0.4768)	info on Rv2237/-
Rv0278c/PE_PGRS3	(cc=0.4717)	info on Rv0278c/PE_PGRS3
Rv3335c/-	(cc=0.4683)	info on Rv3335c/-
Rv0488/-	(cc=0.4605)	info on Rv0488/-

Correlation of Rv1190/- with Rv2281/pitB

Normalized LFCs for Rv1190/-:
(description and provenance of datasets)

	Rv1190/-	Rv2281/pitB
Fe_supp_jason_reseq	-0.126	0.223
low_pH_jason_reseq	0.037	-0.343
NO_jason_reseq	1.105	0.215
B6_jason_reseq	0.834	0.28
MHCII_jason_reseq	-0.149	-0.784
Isoniazid02	-1.247	-1.67
Rifampicin4	-0.29	0.458
Ethambutol3	-1.002	0.555
Meropenem3	-0.712	-0.641
Vancomycin16	-0.679	-0.584
Rv2680_day32	0.752	0.336
H37Rv_KO_MarP	-0.317	-0.325
hypoxia_3wks	-0.881	-0.191
hypoxia_6wks	0.461	-0.1
glycerol	1.062	0.171
cholesterol	0.753	0.215
AJ	0.376	0.482
Bibs02	1.127	0.155
Bibs02c	1.664	0.0
BL6	-0.075	0.69
BL6a	1.167	0.469
BXD01	-0.025	0.193
BXD010	0.768	0.456
BXD011	0.037	0.591
BXD03	0.429	-0.234
BXD04	0.428	-0.139
BXD05	0.942	0.28
BXD06	0.543	0.541
BXD07	0.336	0.643
BXD08	0.281	0.952
BXD09	0.581	1.115
CAST	0.152	0.27
CCcont	0.029	0.588
DS01	0.833	0.69
DS02	0.706	0.605
DS04	0.559	-0.419
DS0c	0.476	-0.614
GP01	0.855	0.147
GP02	-0.595	1.022
GP0c	0.285	-0.429
NOD	0.439	0.298
NZO	-0.315	0.834
PWK	-0.223	0.068
H37Rv_KO_CtpC	0.806	0.165
H37Rv_KO_CtpD	-0.32	0.499
H37Rv_KO_Rv1272	0.156	0.097
H37Rv_KO_SugABC	-1.388	0.673
H37Rv_KO_MbtN	0.087	-0.316
Trans05	1.051	0.515
macrophage_unactivated	0.824	0.622
IL1	-0.845	0.35
Rapamycin	0.328	0.052
Tcell	-1.196	-0.482
GMCSF	0.731	-0.29
IFNab	-0.862	0.051
IFNg	-0.099	0.567
IFNg_GMCSF1	-0.179	-0.465
Rv1432_day32	0.627	0.231
Rv1565c_day32	-1.022	-0.106
secA2_input	0.719	0.277
delta_Rv3594	0.13	0.34
delta_Rv3717	1.62	-0.468
delta_Rv3811	1.096	-1.184
delta_Rv0954	1.052	-0.028
PonA1	1.545	0.299
EccD1_KO	-0.214	-0.164
EspI_KO	0.211	-0.682
PE35_KO	0.388	0.14
PPE68_KO	-0.793	0.304
glycerol2	1.618	1.481
lignocerate	2.3	2.191
oleate	0.091	-0.084
phosphatidylcholine	1.795	1.867
acetate	2.241	2.364
glucAc	1.897	2.339
Rv0950ko	-0.401	0.066
Rv1096ko	1.65	0.383
Rv3684ko	0.4	-0.789
delta_otsA_trehalose	-1.378	-2.033