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 Rv0945/-

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

	Rv0087/hycE	Rv0945/-
Fe_supp_jason_reseq	-0.805	-1.432
low_pH_jason_reseq	0.669	0.216
NO_jason_reseq	-0.806	-1.769
B6_jason_reseq	-1.289	-2.038
MHCII_jason_reseq	-1.136	-0.851
Isoniazid02	-0.1	-0.141
Rifampicin4	-0.482	-0.449
Ethambutol3	-0.216	-0.479
Meropenem3	0.19	-0.285
Vancomycin16	0.422	0.318
Rv2680_day32	1.605	0.896
H37Rv_KO_MarP	0.0	0.265
hypoxia_3wks	0.63	-2.333
hypoxia_6wks	0.113	-1.979
glycerol	0.721	2.127
cholesterol	0.108	-0.647
AJ	0.56	-0.881
Bibs02	-1.0	-1.592
Bibs02c	0.44	-1.085
BL6	1.227	0.723
BL6a	0.416	-0.626
BXD01	-0.051	1.029
BXD010	0.742	-0.486
BXD011	-0.213	-0.569
BXD03	-0.053	-0.92
BXD04	0.178	0.426
BXD05	0.239	-0.602
BXD06	0.192	0.059
BXD07	0.2	-0.064
BXD08	0.963	1.986
BXD09	0.463	-0.36
CAST	-0.385	-1.373
CCcont	1.166	2.31
DS01	-0.621	0.205
DS02	-0.922	0.364
DS04	-0.156	-0.613
DS0c	0.0	-1.672
GP01	0.55	1.651
GP02	-0.353	-0.213
GP0c	0.097	0.718
NOD	-1.715	-1.339
NZO	0.657	-1.357
PWK	-1.073	-1.169
H37Rv_KO_CtpC	0.288	2.408
H37Rv_KO_CtpD	-0.612	-0.976
H37Rv_KO_Rv1272	0.424	0.778
H37Rv_KO_SugABC	0.208	-0.376
H37Rv_KO_MbtN	0.946	-0.614
Trans05	1.991	0.611
macrophage_unactivated	0.511	2.326
IL1	-0.104	-0.78
Rapamycin	0.104	-0.807
Tcell	-0.114	2.63
GMCSF	-0.38	-0.694
IFNab	0.302	0.0
IFNg	-0.703	-0.703
IFNg_GMCSF1	0.314	1.012
Rv1432_day32	-0.368	0.0
Rv1565c_day32	-0.415	0.0
secA2_input	0.0	-0.247
delta_Rv3594	0.389	0.369
delta_Rv3717	0.135	-0.174
delta_Rv3811	0.0	0.805
delta_Rv0954	1.022	1.455
PonA1	0.675	0.212
EccD1_KO	0.0	0.25
EspI_KO	1.275	1.777
PE35_KO	1.21	0.0
PPE68_KO	1.632	0.586
glycerol2	0.392	3.113
lignocerate	0.91	3.78
oleate	-0.403	-0.829
phosphatidylcholine	0.332	2.899
acetate	1.531	4.666
glucAc	1.186	3.978
Rv0950ko	-0.691	-0.09
Rv1096ko	1.022	0.0
Rv3684ko	0.269	-0.96
delta_otsA_trehalose	0.062	0.0