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 Rv1111c/-:

update plot	correlation	link to info on gene
Rv3818/-	(cc=0.7343)	info on Rv3818/-
Rv3854c/ethA	(cc=0.69)	info on Rv3854c/ethA
Rv3267/-	(cc=0.6193)	info on Rv3267/-
Rv0497/-	(cc=0.6082)	info on Rv0497/-
Rv0050/ponA1	(cc=0.605)	info on Rv0050/ponA1
Rv1747/-	(cc=0.603)	info on Rv1747/-
Rv0309/-	(cc=0.5864)	info on Rv0309/-
Rv3794/embA	(cc=0.5803)	info on Rv3794/embA
Rv2190c/-	(cc=0.5646)	info on Rv2190c/-
Rv0397A/-	(cc=0.5632)	info on Rv0397A/-

Correlation of Rv1111c/- with Rv1747/-

Normalized LFCs for Rv1111c/-:
(description and provenance of datasets)

	Rv1111c/-	Rv1747/-
Fe_supp_jason_reseq	1.264	0.118
low_pH_jason_reseq	-0.413	0.167
NO_jason_reseq	1.945	1.166
B6_jason_reseq	-0.818	-0.052
MHCII_jason_reseq	-0.503	0.087
Isoniazid02	-0.885	-0.182
Rifampicin4	-2.32	-2.561
Ethambutol3	0.069	1.85
Meropenem3	0.183	0.327
Vancomycin16	-3.507	-6.0
Rv2680_day32	-1.668	-0.678
H37Rv_KO_MarP	-2.198	-1.992
hypoxia_3wks	0.439	-0.467
hypoxia_6wks	1.685	0.716
glycerol	-1.398	-0.282
cholesterol	0.952	0.541
AJ	-0.457	-0.237
Bibs02	0.694	-0.636
Bibs02c	0.317	-0.922
BL6	1.483	0.541
BL6a	0.587	-0.482
BXD01	0.552	-0.222
BXD010	2.133	0.695
BXD011	0.913	0.332
BXD03	0.934	0.233
BXD04	1.083	0.683
BXD05	2.061	0.382
BXD06	1.355	0.367
BXD07	1.154	0.194
BXD08	0.549	0.258
BXD09	0.848	0.14
CAST	-0.903	-0.312
CCcont	0.802	-0.104
DS01	0.075	-3.177
DS02	0.035	-2.179
DS04	1.003	-2.041
DS0c	0.478	0.165
GP01	0.83	0.425
GP02	0.0	0.282
GP0c	1.352	0.951
NOD	-1.778	-0.547
NZO	0.126	0.066
PWK	1.373	0.676
H37Rv_KO_CtpC	0.872	-0.903
H37Rv_KO_CtpD	-0.437	-0.632
H37Rv_KO_Rv1272	0.469	0.111
H37Rv_KO_SugABC	1.22	-1.574
H37Rv_KO_MbtN	2.108	1.136
Trans05	1.251	0.454
macrophage_unactivated	0.988	0.079
IL1	0.131	0.297
Rapamycin	0.491	0.377
Tcell	0.456	-0.544
GMCSF	1.299	0.121
IFNab	1.859	0.986
IFNg	0.663	0.518
IFNg_GMCSF1	-0.145	0.368
Rv1432_day32	0.082	-0.443
Rv1565c_day32	0.619	-0.212
secA2_input	0.199	0.697
delta_Rv3594	1.103	-0.199
delta_Rv3717	1.38	0.194
delta_Rv3811	1.06	0.177
delta_Rv0954	-1.398	-0.11
PonA1	-1.316	-0.771
EccD1_KO	-0.697	-0.543
EspI_KO	-0.231	-0.719
PE35_KO	-0.753	-0.753
PPE68_KO	-0.442	-0.675
glycerol2	-0.398	-1.319
lignocerate	-0.681	-0.458
oleate	-0.403	-0.356
phosphatidylcholine	-1.008	-0.402
acetate	-0.086	-0.12
glucAc	-0.578	0.01
Rv0950ko	-0.142	0.226
Rv1096ko	0.651	0.495
Rv3684ko	-0.206	0.033
delta_otsA_trehalose	-0.474	-0.318