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 Rv0590A/-

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

	Rv1190/-	Rv0590A/-
Fe_supp_jason_reseq	-0.126	0.663
low_pH_jason_reseq	0.037	-0.572
NO_jason_reseq	1.105	-0.163
B6_jason_reseq	0.834	-2.111
MHCII_jason_reseq	-0.149	-0.04
Isoniazid02	-1.247	-0.336
Rifampicin4	-0.29	-0.301
Ethambutol3	-1.002	-0.441
Meropenem3	-0.712	1.26
Vancomycin16	-0.679	-0.451
Rv2680_day32	0.752	-0.708
H37Rv_KO_MarP	-0.317	0.229
hypoxia_3wks	-0.881	0.271
hypoxia_6wks	0.461	0.691
glycerol	1.062	-0.113
cholesterol	0.753	-0.35
AJ	0.376	-0.313
Bibs02	1.127	-1.137
Bibs02c	1.664	0.0
BL6	-0.075	1.26
BL6a	1.167	-0.036
BXD01	-0.025	0.472
BXD010	0.768	1.416
BXD011	0.037	0.699
BXD03	0.429	0.652
BXD04	0.428	0.478
BXD05	0.942	0.738
BXD06	0.543	1.416
BXD07	0.336	0.333
BXD08	0.281	0.729
BXD09	0.581	0.871
CAST	0.152	0.891
CCcont	0.029	1.908
DS01	0.833	-1.547
DS02	0.706	-1.498
DS04	0.559	-1.627
DS0c	0.476	0.892
GP01	0.855	1.282
GP02	-0.595	-0.698
GP0c	0.285	-0.439
NOD	0.439	-0.932
NZO	-0.315	0.139
PWK	-0.223	0.901
H37Rv_KO_CtpC	0.806	1.234
H37Rv_KO_CtpD	-0.32	-0.306
H37Rv_KO_Rv1272	0.156	1.361
H37Rv_KO_SugABC	-1.388	-1.472
H37Rv_KO_MbtN	0.087	0.449
Trans05	1.051	-0.097
macrophage_unactivated	0.824	-0.246
IL1	-0.845	-0.098
Rapamycin	0.328	-0.206
Tcell	-1.196	-0.29
GMCSF	0.731	0.56
IFNab	-0.862	-0.523
IFNg	-0.099	1.272
IFNg_GMCSF1	-0.179	0.069
Rv1432_day32	0.627	0.0
Rv1565c_day32	-1.022	0.212
secA2_input	0.719	-0.668
delta_Rv3594	0.13	1.732
delta_Rv3717	1.62	1.292
delta_Rv3811	1.096	2.357
delta_Rv0954	1.052	0.981
PonA1	1.545	1.5
EccD1_KO	-0.214	1.194
EspI_KO	0.211	0.964
PE35_KO	0.388	0.09
PPE68_KO	-0.793	0.294
glycerol2	1.618	2.802
lignocerate	2.3	3.418
oleate	0.091	0.0
phosphatidylcholine	1.795	3.055
acetate	2.241	4.271
glucAc	1.897	3.444
Rv0950ko	-0.401	-0.175
Rv1096ko	1.65	0.856
Rv3684ko	0.4	0.894
delta_otsA_trehalose	-1.378	-3.015