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 Rv1844c/gnd1

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

	Rv0654/-	Rv1844c/gnd1
Fe_supp_jason_reseq	-1.487	-0.077
low_pH_jason_reseq	-2.16	-0.654
NO_jason_reseq	0.706	0.021
B6_jason_reseq	-0.841	-0.298
MHCII_jason_reseq	-0.807	0.419
Isoniazid02	0.458	0.557
Rifampicin4	-0.263	0.043
Ethambutol3	1.187	2.237
Meropenem3	0.234	-0.042
Vancomycin16	-0.308	-0.257
Rv2680_day32	0.07	0.313
H37Rv_KO_MarP	0.114	0.168
hypoxia_3wks	-0.144	0.136
hypoxia_6wks	0.169	-0.386
glycerol	-0.361	-0.23
cholesterol	-0.111	0.803
AJ	0.435	0.467
Bibs02	0.122	0.195
Bibs02c	0.426	0.256
BL6	0.212	-0.161
BL6a	-0.095	-0.116
BXD01	0.139	-0.05
BXD010	-0.658	0.144
BXD011	0.296	-0.108
BXD03	-0.278	-0.033
BXD04	0.053	-0.292
BXD05	-0.428	0.0
BXD06	-0.155	-0.264
BXD07	-0.152	-0.11
BXD08	0.054	0.0
BXD09	-0.216	0.006
CAST	0.309	-0.245
CCcont	-0.22	-0.407
DS01	0.327	0.424
DS02	0.249	0.414
DS04	0.627	0.323
DS0c	0.547	0.028
GP01	0.208	1.425
GP02	0.613	0.785
GP0c	0.129	0.064
NOD	0.693	0.513
NZO	0.081	0.983
PWK	0.08	0.374
H37Rv_KO_CtpC	-0.213	0.506
H37Rv_KO_CtpD	0.051	0.269
H37Rv_KO_Rv1272	0.049	0.046
H37Rv_KO_SugABC	0.384	0.191
H37Rv_KO_MbtN	0.231	-0.649
Trans05	-0.465	0.4
macrophage_unactivated	0.391	0.142
IL1	0.297	0.676
Rapamycin	0.319	0.669
Tcell	-0.456	-0.137
GMCSF	0.684	0.602
IFNab	-0.027	-0.033
IFNg	0.425	0.476
IFNg_GMCSF1	0.277	0.107
Rv1432_day32	0.489	0.46
Rv1565c_day32	-0.024	0.15
secA2_input	0.352	-0.418
delta_Rv3594	-0.148	-0.034
delta_Rv3717	-0.277	-0.166
delta_Rv3811	-0.058	0.369
delta_Rv0954	0.318	0.504
PonA1	-0.373	-0.295
EccD1_KO	0.151	-0.049
EspI_KO	-0.183	0.274
PE35_KO	-0.694	-0.053
PPE68_KO	-0.761	0.058
glycerol2	0.773	0.992
lignocerate	0.561	0.416
oleate	0.851	0.763
phosphatidylcholine	0.664	0.745
acetate	-0.351	0.038
glucAc	-0.288	-0.053
Rv0950ko	0.627	0.208
Rv1096ko	0.715	0.124
Rv3684ko	0.413	0.052
delta_otsA_trehalose	-0.301	-0.511