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 Rv0755A/-:

update plot	correlation	link to info on gene
Rv2958c/-	(cc=0.6617)	info on Rv2958c/-
Rv2142c/parE2	(cc=0.5426)	info on Rv2142c/parE2
Rv1917c/PPE34	(cc=0.5378)	info on Rv1917c/PPE34
Rv3738c/PPE66	(cc=0.5334)	info on Rv3738c/PPE66
Rv1500/-	(cc=0.5308)	info on Rv1500/-
Rv0830/-	(cc=0.5195)	info on Rv0830/-
Rv3429/PPE59	(cc=0.511)	info on Rv3429/PPE59
Rv0403c/mmpS1	(cc=0.5107)	info on Rv0403c/mmpS1
Rv3121/cyp141	(cc=0.494)	info on Rv3121/cyp141
Rv1861/-	(cc=0.4873)	info on Rv1861/-

Correlation of Rv0755A/- with Rv2958c/-

Normalized LFCs for Rv0755A/-:
(description and provenance of datasets)

	Rv0755A/-	Rv2958c/-
Fe_supp_jason_reseq	-0.003	0.218
low_pH_jason_reseq	-1.183	-0.591
NO_jason_reseq	0.641	-0.412
B6_jason_reseq	-0.037	-0.317
MHCII_jason_reseq	0.719	0.082
Isoniazid02	-0.234	0.674
Rifampicin4	-0.287	0.103
Ethambutol3	0.878	0.818
Meropenem3	0.081	0.367
Vancomycin16	0.13	0.257
Rv2680_day32	0.433	0.459
H37Rv_KO_MarP	0.285	0.464
hypoxia_3wks	0.008	0.016
hypoxia_6wks	-0.132	-0.495
glycerol	-2.717	-1.678
cholesterol	-1.446	-0.524
AJ	0.069	0.212
Bibs02	0.759	0.257
Bibs02c	1.164	0.382
BL6	-0.146	-0.448
BL6a	0.946	0.211
BXD01	0.308	-0.022
BXD010	0.189	0.164
BXD011	0.529	0.071
BXD03	0.461	-0.041
BXD04	0.334	0.179
BXD05	0.646	0.198
BXD06	0.275	-0.162
BXD07	0.168	-0.105
BXD08	0.405	0.008
BXD09	0.479	-0.21
CAST	0.242	0.092
CCcont	-0.236	-0.071
DS01	0.216	0.269
DS02	0.318	0.263
DS04	0.259	0.548
DS0c	0.779	0.225
GP01	-0.621	0.408
GP02	0.938	0.959
GP0c	0.059	-0.35
NOD	0.882	0.937
NZO	0.513	0.475
PWK	-0.162	0.485
H37Rv_KO_CtpC	0.494	0.377
H37Rv_KO_CtpD	0.847	0.694
H37Rv_KO_Rv1272	0.686	0.96
H37Rv_KO_SugABC	0.306	0.495
H37Rv_KO_MbtN	0.801	0.425
Trans05	0.751	1.058
macrophage_unactivated	-0.477	0.136
IL1	0.044	-0.744
Rapamycin	0.175	-0.276
Tcell	-0.062	-0.306
GMCSF	0.034	-0.177
IFNab	-0.532	-0.414
IFNg	-0.011	-0.179
IFNg_GMCSF1	-0.735	0.277
Rv1432_day32	-0.246	0.365
Rv1565c_day32	0.602	0.303
secA2_input	-0.836	-0.524
delta_Rv3594	-0.081	0.366
delta_Rv3717	-0.472	-0.198
delta_Rv3811	-0.17	0.26
delta_Rv0954	0.036	-0.059
PonA1	-0.018	-0.108
EccD1_KO	0.036	0.28
EspI_KO	-0.471	0.342
PE35_KO	-0.543	0.586
PPE68_KO	0.23	0.394
glycerol2	0.773	0.509
lignocerate	0.968	0.6
oleate	0.78	0.509
phosphatidylcholine	1.234	0.71
acetate	-0.09	0.166
glucAc	-0.181	0.194
Rv0950ko	0.413	0.066
Rv1096ko	-0.808	-0.682
Rv3684ko	-1.005	-0.465
delta_otsA_trehalose	0.236	0.014