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 Rv1751/-

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

	Rv0087/hycE	Rv1751/-
Fe_supp_jason_reseq	-0.805	-0.385
low_pH_jason_reseq	0.669	0.654
NO_jason_reseq	-0.806	-0.05
B6_jason_reseq	-1.289	-0.933
MHCII_jason_reseq	-1.136	-0.553
Isoniazid02	-0.1	-0.389
Rifampicin4	-0.482	-0.081
Ethambutol3	-0.216	-0.201
Meropenem3	0.19	-0.593
Vancomycin16	0.422	-0.268
Rv2680_day32	1.605	0.99
H37Rv_KO_MarP	0.0	-0.44
hypoxia_3wks	0.63	-0.415
hypoxia_6wks	0.113	-1.036
glycerol	0.721	-0.885
cholesterol	0.108	-0.375
AJ	0.56	0.425
Bibs02	-1.0	-0.164
Bibs02c	0.44	0.227
BL6	1.227	1.018
BL6a	0.416	0.631
BXD01	-0.051	0.482
BXD010	0.742	0.973
BXD011	-0.213	0.593
BXD03	-0.053	0.296
BXD04	0.178	1.29
BXD05	0.239	0.31
BXD06	0.192	0.396
BXD07	0.2	0.455
BXD08	0.963	0.668
BXD09	0.463	0.078
CAST	-0.385	-0.207
CCcont	1.166	0.982
DS01	-0.621	0.257
DS02	-0.922	-0.685
DS04	-0.156	1.058
DS0c	0.0	0.0
GP01	0.55	0.478
GP02	-0.353	0.688
GP0c	0.097	0.653
NOD	-1.715	0.244
NZO	0.657	0.757
PWK	-1.073	-0.028
H37Rv_KO_CtpC	0.288	0.43
H37Rv_KO_CtpD	-0.612	-1.65
H37Rv_KO_Rv1272	0.424	0.079
H37Rv_KO_SugABC	0.208	0.606
H37Rv_KO_MbtN	0.946	0.891
Trans05	1.991	0.496
macrophage_unactivated	0.511	0.123
IL1	-0.104	-0.765
Rapamycin	0.104	0.347
Tcell	-0.114	-0.042
GMCSF	-0.38	-0.517
IFNab	0.302	-0.593
IFNg	-0.703	-0.254
IFNg_GMCSF1	0.314	-0.167
Rv1432_day32	-0.368	-0.763
Rv1565c_day32	-0.415	0.625
secA2_input	0.0	-0.515
delta_Rv3594	0.389	0.716
delta_Rv3717	0.135	0.108
delta_Rv3811	0.0	1.08
delta_Rv0954	1.022	0.176
PonA1	0.675	0.668
EccD1_KO	0.0	-0.22
EspI_KO	1.275	-0.046
PE35_KO	1.21	0.321
PPE68_KO	1.632	0.637
glycerol2	0.392	0.021
lignocerate	0.91	0.638
oleate	-0.403	-0.675
phosphatidylcholine	0.332	0.238
acetate	1.531	0.708
glucAc	1.186	1.36
Rv0950ko	-0.691	-0.308
Rv1096ko	1.022	0.642
Rv3684ko	0.269	-0.052
delta_otsA_trehalose	0.062	1.676