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 Rv0654/-:

update plot	correlation	link to info on gene
Rv2590/fadD9	(cc=0.6053)	info on Rv2590/fadD9
Rv2495c/bkdC	(cc=0.5864)	info on Rv2495c/bkdC
Rv2770c/PPE44	(cc=0.5132)	info on Rv2770c/PPE44
Rv1844c/gnd1	(cc=0.5072)	info on Rv1844c/gnd1
Rv3440c/-	(cc=0.4989)	info on Rv3440c/-
Rv3558/PPE64	(cc=0.4858)	info on Rv3558/PPE64
Rv0222/echA1	(cc=0.4802)	info on Rv0222/echA1
Rv0826/-	(cc=0.4795)	info on Rv0826/-
Rv0281/-	(cc=0.4727)	info on Rv0281/-
Rv2579/dhaA	(cc=0.4699)	info on Rv2579/dhaA

Correlation of Rv0654/- with Rv2770c/PPE44

Normalized LFCs for Rv0654/-:
(description and provenance of datasets)

	Rv0654/-	Rv2770c/PPE44
Fe_supp_jason_reseq	-1.487	-0.586
low_pH_jason_reseq	-2.16	-0.698
NO_jason_reseq	0.706	-0.231
B6_jason_reseq	-0.841	-0.296
MHCII_jason_reseq	-0.807	-0.062
Isoniazid02	0.458	1.358
Rifampicin4	-0.263	0.011
Ethambutol3	1.187	0.537
Meropenem3	0.234	0.046
Vancomycin16	-0.308	0.194
Rv2680_day32	0.07	0.04
H37Rv_KO_MarP	0.114	0.119
hypoxia_3wks	-0.144	0.427
hypoxia_6wks	0.169	0.069
glycerol	-0.361	-0.372
cholesterol	-0.111	-0.456
AJ	0.435	0.469
Bibs02	0.122	0.038
Bibs02c	0.426	0.289
BL6	0.212	-0.362
BL6a	-0.095	0.211
BXD01	0.139	0.072
BXD010	-0.658	-0.009
BXD011	0.296	0.54
BXD03	-0.278	0.354
BXD04	0.053	-0.302
BXD05	-0.428	0.064
BXD06	-0.155	-0.152
BXD07	-0.152	-0.107
BXD08	0.054	0.189
BXD09	-0.216	0.138
CAST	0.309	0.063
CCcont	-0.22	-0.604
DS01	0.327	0.14
DS02	0.249	-0.088
DS04	0.627	1.072
DS0c	0.547	0.599
GP01	0.208	0.85
GP02	0.613	1.191
GP0c	0.129	0.263
NOD	0.693	0.41
NZO	0.081	0.087
PWK	0.08	0.377
H37Rv_KO_CtpC	-0.213	0.639
H37Rv_KO_CtpD	0.051	0.533
H37Rv_KO_Rv1272	0.049	0.521
H37Rv_KO_SugABC	0.384	-0.04
H37Rv_KO_MbtN	0.231	0.178
Trans05	-0.465	0.178
macrophage_unactivated	0.391	0.347
IL1	0.297	0.151
Rapamycin	0.319	0.485
Tcell	-0.456	0.492
GMCSF	0.684	0.301
IFNab	-0.027	0.435
IFNg	0.425	0.508
IFNg_GMCSF1	0.277	1.163
Rv1432_day32	0.489	-0.083
Rv1565c_day32	-0.024	-0.325
secA2_input	0.352	-0.092
delta_Rv3594	-0.148	0.734
delta_Rv3717	-0.277	0.327
delta_Rv3811	-0.058	0.314
delta_Rv0954	0.318	0.367
PonA1	-0.373	0.382
EccD1_KO	0.151	-0.421
EspI_KO	-0.183	0.234
PE35_KO	-0.694	-0.239
PPE68_KO	-0.761	-0.278
glycerol2	0.773	0.71
lignocerate	0.561	0.464
oleate	0.851	1.138
phosphatidylcholine	0.664	0.945
acetate	-0.351	-0.492
glucAc	-0.288	-0.525
Rv0950ko	0.627	0.374
Rv1096ko	0.715	-0.398
Rv3684ko	0.413	-0.092
delta_otsA_trehalose	-0.301	-0.162