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 Rv0114/gmhB:

update plot	correlation	link to info on gene
Rv3429/PPE59	(cc=0.5625)	info on Rv3429/PPE59
Rv1593c/-	(cc=0.5324)	info on Rv1593c/-
Rv1500/-	(cc=0.5287)	info on Rv1500/-
Rv3210c/-	(cc=0.5193)	info on Rv3210c/-
Rv0305c/PPE6	(cc=0.5174)	info on Rv0305c/PPE6
Rv3528c/-	(cc=0.5168)	info on Rv3528c/-
Rv3524/-	(cc=0.5099)	info on Rv3524/-
Rv1981c/nrdF1	(cc=0.5018)	info on Rv1981c/nrdF1
Rv0028/-	(cc=0.4889)	info on Rv0028/-
Rv0059/-	(cc=0.4872)	info on Rv0059/-

Correlation of Rv0114/gmhB with Rv3210c/-

Normalized LFCs for Rv0114/gmhB:
(description and provenance of datasets)

	Rv0114/gmhB	Rv3210c/-
Fe_supp_jason_reseq	0.718	2.062
low_pH_jason_reseq	-0.632	-3.853
NO_jason_reseq	1.271	-2.056
B6_jason_reseq	0.594	-1.674
MHCII_jason_reseq	0.439	-2.452
Isoniazid02	-0.051	-0.351
Rifampicin4	-0.046	-0.311
Ethambutol3	-0.129	0.0
Meropenem3	1.923	0.0
Vancomycin16	0.409	-0.305
Rv2680_day32	0.962	0.617
H37Rv_KO_MarP	0.069	-3.844
hypoxia_3wks	-0.73	-5.383
hypoxia_6wks	-0.079	-2.533
glycerol	-0.762	-0.709
cholesterol	-0.144	-0.509
AJ	0.849	-0.18
Bibs02	0.188	0.132
Bibs02c	1.173	-0.336
BL6	1.019	2.786
BL6a	1.633	3.965
BXD01	0.578	4.097
BXD010	0.796	4.494
BXD011	2.605	4.043
BXD03	1.583	2.532
BXD04	1.206	4.283
BXD05	0.811	3.297
BXD06	1.011	4.797
BXD07	1.313	4.33
BXD08	0.994	4.103
BXD09	0.777	4.378
CAST	0.566	-0.809
CCcont	0.79	4.389
DS01	0.503	0.0
DS02	0.487	-0.548
DS04	1.088	1.97
DS0c	0.544	-0.168
GP01	0.688	-0.077
GP02	0.101	0.116
GP0c	0.118	1.73
NOD	1.526	-0.789
NZO	0.457	-0.701
PWK	0.128	-0.689
H37Rv_KO_CtpC	0.805	1.944
H37Rv_KO_CtpD	2.513	1.545
H37Rv_KO_Rv1272	1.842	2.512
H37Rv_KO_SugABC	2.029	3.415
H37Rv_KO_MbtN	0.753	5.206
Trans05	1.298	3.053
macrophage_unactivated	0.508	-0.716
IL1	-0.4	0.341
Rapamycin	0.313	0.0
Tcell	0.772	-1.619
GMCSF	1.648	0.721
IFNab	0.671	2.283
IFNg	0.214	1.109
IFNg_GMCSF1	0.198	-0.396
Rv1432_day32	0.435	-1.71
Rv1565c_day32	-2.3	-3.884
secA2_input	-0.822	1.565
delta_Rv3594	0.176	0.153
delta_Rv3717	0.841	0.946
delta_Rv3811	-0.052	0.913
delta_Rv0954	0.863	-3.66
PonA1	-0.166	-5.488
EccD1_KO	0.115	-2.457
EspI_KO	0.083	-2.073
PE35_KO	0.344	-3.104
PPE68_KO	0.429	-3.161
glycerol2	1.023	0.82
lignocerate	1.24	0.0
oleate	0.119	0.0
phosphatidylcholine	1.042	0.0
acetate	0.853	0.0
glucAc	0.887	0.392
Rv0950ko	1.269	-0.214
Rv1096ko	0.145	0.178
Rv3684ko	0.881	0.635
delta_otsA_trehalose	-0.281	0.0