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 Rv2715/-:

update plot	correlation	link to info on gene
Rv2394/ggtB	(cc=0.6425)	info on Rv2394/ggtB
Rv0338c/-	(cc=0.5414)	info on Rv0338c/-
Rv2268c/cyp128	(cc=0.4909)	info on Rv2268c/cyp128
Rv2189c/-	(cc=0.4775)	info on Rv2189c/-
Rv0373c/-	(cc=0.4709)	info on Rv0373c/-
Rv1317c/alkA	(cc=0.4611)	info on Rv1317c/alkA
Rv3730c/-	(cc=0.4507)	info on Rv3730c/-
Rv0069c/sdaA	(cc=0.4477)	info on Rv0069c/sdaA
Rv2962c/-	(cc=0.437)	info on Rv2962c/-
Rv0797/-	(cc=0.4327)	info on Rv0797/-

Correlation of Rv2715/- with Rv0373c/-

Normalized LFCs for Rv2715/-:
(description and provenance of datasets)

	Rv2715/-	Rv0373c/-
Fe_supp_jason_reseq	-0.508	-0.676
low_pH_jason_reseq	0.796	0.775
NO_jason_reseq	-0.646	0.656
B6_jason_reseq	-0.542	-0.535
MHCII_jason_reseq	0.346	-0.119
Isoniazid02	1.224	-0.31
Rifampicin4	-0.504	-0.276
Ethambutol3	2.932	-0.231
Meropenem3	2.498	1.324
Vancomycin16	0.0	-0.162
Rv2680_day32	-0.73	0.836
H37Rv_KO_MarP	0.223	-0.059
hypoxia_3wks	-0.116	0.307
hypoxia_6wks	0.175	-0.054
glycerol	-0.471	0.391
cholesterol	4.799	5.178
AJ	-0.024	-0.261
Bibs02	-0.223	0.126
Bibs02c	1.516	0.611
BL6	0.26	0.106
BL6a	1.24	0.0
BXD01	0.314	0.213
BXD010	1.166	0.651
BXD011	0.642	0.319
BXD03	0.349	-0.352
BXD04	0.809	-0.163
BXD05	0.369	0.714
BXD06	0.366	-0.098
BXD07	0.357	-0.269
BXD08	0.448	-0.149
BXD09	0.788	-0.158
CAST	-0.28	0.195
CCcont	0.348	0.151
DS01	0.429	-0.086
DS02	0.132	-0.039
DS04	0.682	0.067
DS0c	0.046	0.633
GP01	0.804	0.017
GP02	0.516	1.31
GP0c	0.387	0.543
NOD	1.787	0.19
NZO	-0.964	0.069
PWK	0.158	0.82
H37Rv_KO_CtpC	0.607	-0.577
H37Rv_KO_CtpD	0.185	0.559
H37Rv_KO_Rv1272	0.558	0.252
H37Rv_KO_SugABC	0.898	0.471
H37Rv_KO_MbtN	1.101	-0.502
Trans05	1.278	0.515
macrophage_unactivated	0.3	0.357
IL1	-0.065	-0.27
Rapamycin	0.353	0.512
Tcell	0.176	-0.196
GMCSF	-0.148	0.298
IFNab	-0.133	0.175
IFNg	0.644	0.446
IFNg_GMCSF1	-0.358	-0.386
Rv1432_day32	-0.499	-0.505
Rv1565c_day32	-0.655	0.58
secA2_input	-0.11	-0.348
delta_Rv3594	0.728	0.567
delta_Rv3717	0.151	0.0
delta_Rv3811	1.169	0.0
delta_Rv0954	0.783	-0.168
PonA1	0.386	-0.422
EccD1_KO	1.095	-0.253
EspI_KO	0.95	-0.451
PE35_KO	1.476	-0.648
PPE68_KO	0.784	-0.573
glycerol2	-0.476	-0.171
lignocerate	0.102	-0.149
oleate	-0.216	-0.085
phosphatidylcholine	0.0	-0.028
acetate	0.206	0.304
glucAc	0.481	0.059
Rv0950ko	-0.109	-0.338
Rv1096ko	-0.145	0.374
Rv3684ko	-0.318	0.468
delta_otsA_trehalose	0.879	-1.609