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 Rv3744/nmtR:

update plot	correlation	link to info on gene
Rv0393/-	(cc=0.4691)	info on Rv0393/-
Rv0133/-	(cc=0.4681)	info on Rv0133/-
Rv3470c/ilvB2	(cc=0.4677)	info on Rv3470c/ilvB2
Rv3558/PPE64	(cc=0.4654)	info on Rv3558/PPE64
Rv3142c/-	(cc=0.4531)	info on Rv3142c/-
Rv3517/-	(cc=0.4522)	info on Rv3517/-
Rv0823c/-	(cc=0.4468)	info on Rv0823c/-
Rv3912/-	(cc=0.4437)	info on Rv3912/-
Rv2797c/-	(cc=0.4368)	info on Rv2797c/-
Rv3904c/esxE	(cc=0.4334)	info on Rv3904c/esxE

Correlation of Rv3744/nmtR with Rv3517/-

Normalized LFCs for Rv3744/nmtR:
(description and provenance of datasets)

	Rv3744/nmtR	Rv3517/-
Fe_supp_jason_reseq	-1.793	0.3
low_pH_jason_reseq	-0.982	-1.491
NO_jason_reseq	0.134	-0.541
B6_jason_reseq	-1.443	-0.856
MHCII_jason_reseq	-0.96	-0.266
Isoniazid02	0.23	-0.419
Rifampicin4	0.111	0.65
Ethambutol3	0.745	0.514
Meropenem3	0.298	1.004
Vancomycin16	0.162	-0.297
Rv2680_day32	-1.045	-0.576
H37Rv_KO_MarP	0.138	0.016
hypoxia_3wks	0.949	-0.427
hypoxia_6wks	-0.831	-0.397
glycerol	-0.025	-0.793
cholesterol	0.079	0.252
AJ	1.198	1.592
Bibs02	-0.703	0.736
Bibs02c	-0.443	0.202
BL6	0.81	0.556
BL6a	-0.317	-0.076
BXD01	0.426	0.731
BXD010	-0.481	0.671
BXD011	-0.149	0.3
BXD03	-0.042	0.891
BXD04	0.022	0.279
BXD05	0.049	0.234
BXD06	-0.377	0.218
BXD07	0.301	0.084
BXD08	0.499	1.061
BXD09	-0.017	0.589
CAST	0.429	0.14
CCcont	-0.186	0.639
DS01	-0.744	0.869
DS02	0.118	0.354
DS04	0.15	1.117
DS0c	0.278	0.08
GP01	0.809	0.805
GP02	0.245	-0.124
GP0c	-0.1	1.021
NOD	0.804	1.778
NZO	0.643	0.803
PWK	1.65	1.833
H37Rv_KO_CtpC	1.471	1.432
H37Rv_KO_CtpD	1.334	0.683
H37Rv_KO_Rv1272	-0.053	1.625
H37Rv_KO_SugABC	1.483	0.39
H37Rv_KO_MbtN	-0.806	-0.153
Trans05	0.485	1.08
macrophage_unactivated	-0.354	0.698
IL1	-1.605	0.036
Rapamycin	-0.921	-0.629
Tcell	-0.661	0.948
GMCSF	-0.734	0.063
IFNab	-1.218	0.245
IFNg	-1.013	-0.265
IFNg_GMCSF1	-0.028	0.327
Rv1432_day32	-1.276	-0.394
Rv1565c_day32	-0.174	-0.357
secA2_input	1.747	0.332
delta_Rv3594	-0.424	-0.408
delta_Rv3717	-0.245	-0.258
delta_Rv3811	0.77	0.016
delta_Rv0954	-0.074	-0.362
PonA1	1.046	1.154
EccD1_KO	-0.375	0.766
EspI_KO	-0.95	-0.439
PE35_KO	-1.342	0.055
PPE68_KO	-2.166	0.358
glycerol2	-0.34	0.611
lignocerate	-0.801	0.746
oleate	0.751	0.956
phosphatidylcholine	-0.34	0.728
acetate	-0.316	0.12
glucAc	-0.992	0.223
Rv0950ko	1.182	0.036
Rv1096ko	0.513	1.616
Rv3684ko	0.069	1.33
delta_otsA_trehalose	1.21	0.831