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 Rv2632c/-

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

	Rv0087/hycE	Rv2632c/-
Fe_supp_jason_reseq	-0.805	1.043
low_pH_jason_reseq	0.669	0.729
NO_jason_reseq	-0.806	-0.147
B6_jason_reseq	-1.289	-2.431
MHCII_jason_reseq	-1.136	-0.613
Isoniazid02	-0.1	-0.611
Rifampicin4	-0.482	0.818
Ethambutol3	-0.216	-0.179
Meropenem3	0.19	0.506
Vancomycin16	0.422	0.711
Rv2680_day32	1.605	1.494
H37Rv_KO_MarP	0.0	-0.322
hypoxia_3wks	0.63	-0.526
hypoxia_6wks	0.113	0.186
glycerol	0.721	-0.08
cholesterol	0.108	0.038
AJ	0.56	1.044
Bibs02	-1.0	-2.959
Bibs02c	0.44	-0.629
BL6	1.227	1.442
BL6a	0.416	0.1
BXD01	-0.051	0.304
BXD010	0.742	0.936
BXD011	-0.213	0.88
BXD03	-0.053	1.964
BXD04	0.178	1.9
BXD05	0.239	0.836
BXD06	0.192	1.051
BXD07	0.2	0.702
BXD08	0.963	2.095
BXD09	0.463	0.558
CAST	-0.385	-1.792
CCcont	1.166	1.366
DS01	-0.621	-1.903
DS02	-0.922	-1.358
DS04	-0.156	1.15
DS0c	0.0	-1.065
GP01	0.55	0.188
GP02	-0.353	-1.4
GP0c	0.097	-0.201
NOD	-1.715	-3.03
NZO	0.657	0.738
PWK	-1.073	-0.458
H37Rv_KO_CtpC	0.288	-0.065
H37Rv_KO_CtpD	-0.612	0.373
H37Rv_KO_Rv1272	0.424	0.522
H37Rv_KO_SugABC	0.208	-1.435
H37Rv_KO_MbtN	0.946	-1.493
Trans05	1.991	-0.017
macrophage_unactivated	0.511	-1.411
IL1	-0.104	-1.661
Rapamycin	0.104	-0.592
Tcell	-0.114	-1.962
GMCSF	-0.38	1.117
IFNab	0.302	-1.058
IFNg	-0.703	-1.387
IFNg_GMCSF1	0.314	-0.273
Rv1432_day32	-0.368	-2.24
Rv1565c_day32	-0.415	-1.033
secA2_input	0.0	1.363
delta_Rv3594	0.389	1.257
delta_Rv3717	0.135	1.053
delta_Rv3811	0.0	0.287
delta_Rv0954	1.022	-0.986
PonA1	0.675	-0.831
EccD1_KO	0.0	-0.138
EspI_KO	1.275	2.852
PE35_KO	1.21	0.963
PPE68_KO	1.632	-0.637
glycerol2	0.392	1.206
lignocerate	0.91	2.176
oleate	-0.403	-2.836
phosphatidylcholine	0.332	1.417
acetate	1.531	2.198
glucAc	1.186	2.254
Rv0950ko	-0.691	-1.64
Rv1096ko	1.022	-0.528
Rv3684ko	0.269	-0.092
delta_otsA_trehalose	0.062	0.422