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 Rv0087/hycE:

update plot	correlation	link to info on gene
Rv0945/-	(cc=0.5258)	info on Rv0945/-
Rv2632c/-	(cc=0.5227)	info on Rv2632c/-
Rv1751/-	(cc=0.4746)	info on Rv1751/-
Rv1237/sugB	(cc=0.4581)	info on Rv1237/sugB
Rv2475c/-	(cc=0.4189)	info on Rv2475c/-
Rv0690c/-	(cc=0.4174)	info on Rv0690c/-
Rv2085/-	(cc=0.4144)	info on Rv2085/-
Rv3553/-	(cc=0.414)	info on Rv3553/-
Rv3036c/TB22.2	(cc=0.4093)	info on Rv3036c/TB22.2
Rv2237/-	(cc=0.4086)	info on Rv2237/-

Correlation of Rv0087/hycE with Rv0690c/-

Normalized LFCs for Rv0087/hycE:
(description and provenance of datasets)

	Rv0087/hycE	Rv0690c/-
Fe_supp_jason_reseq	-0.805	-0.223
low_pH_jason_reseq	0.669	-0.663
NO_jason_reseq	-0.806	-0.234
B6_jason_reseq	-1.289	-0.28
MHCII_jason_reseq	-1.136	-2.012
Isoniazid02	-0.1	0.036
Rifampicin4	-0.482	-0.39
Ethambutol3	-0.216	1.099
Meropenem3	0.19	0.338
Vancomycin16	0.422	-0.032
Rv2680_day32	1.605	0.104
H37Rv_KO_MarP	0.0	0.669
hypoxia_3wks	0.63	-0.211
hypoxia_6wks	0.113	0.635
glycerol	0.721	0.214
cholesterol	0.108	-0.171
AJ	0.56	-0.316
Bibs02	-1.0	-0.351
Bibs02c	0.44	0.423
BL6	1.227	-0.205
BL6a	0.416	0.253
BXD01	-0.051	-0.395
BXD010	0.742	0.05
BXD011	-0.213	0.189
BXD03	-0.053	-0.124
BXD04	0.178	-0.349
BXD05	0.239	-0.325
BXD06	0.192	0.0
BXD07	0.2	-0.512
BXD08	0.963	0.141
BXD09	0.463	-0.312
CAST	-0.385	-0.152
CCcont	1.166	-0.061
DS01	-0.621	-0.116
DS02	-0.922	-0.46
DS04	-0.156	-0.128
DS0c	0.0	-0.902
GP01	0.55	-0.2
GP02	-0.353	-0.407
GP0c	0.097	-0.395
NOD	-1.715	-0.129
NZO	0.657	-0.29
PWK	-1.073	0.016
H37Rv_KO_CtpC	0.288	0.076
H37Rv_KO_CtpD	-0.612	-1.329
H37Rv_KO_Rv1272	0.424	0.384
H37Rv_KO_SugABC	0.208	-1.945
H37Rv_KO_MbtN	0.946	1.325
Trans05	1.991	0.638
macrophage_unactivated	0.511	-0.657
IL1	-0.104	0.638
Rapamycin	0.104	0.089
Tcell	-0.114	-0.534
GMCSF	-0.38	0.319
IFNab	0.302	0.057
IFNg	-0.703	-0.708
IFNg_GMCSF1	0.314	0.434
Rv1432_day32	-0.368	-0.897
Rv1565c_day32	-0.415	0.27
secA2_input	0.0	1.767
delta_Rv3594	0.389	0.159
delta_Rv3717	0.135	-0.223
delta_Rv3811	0.0	-0.431
delta_Rv0954	1.022	0.134
PonA1	0.675	1.12
EccD1_KO	0.0	1.105
EspI_KO	1.275	1.184
PE35_KO	1.21	1.488
PPE68_KO	1.632	1.533
glycerol2	0.392	0.046
lignocerate	0.91	0.432
oleate	-0.403	-0.173
phosphatidylcholine	0.332	0.158
acetate	1.531	0.409
glucAc	1.186	0.497
Rv0950ko	-0.691	0.13
Rv1096ko	1.022	0.467
Rv3684ko	0.269	-0.694
delta_otsA_trehalose	0.062	-0.391