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 Rv0028/-

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

	Rv0114/gmhB	Rv0028/-
Fe_supp_jason_reseq	0.718	-0.319
low_pH_jason_reseq	-0.632	-1.246
NO_jason_reseq	1.271	0.273
B6_jason_reseq	0.594	-0.253
MHCII_jason_reseq	0.439	-0.418
Isoniazid02	-0.051	0.102
Rifampicin4	-0.046	-0.349
Ethambutol3	-0.129	-0.185
Meropenem3	1.923	-0.037
Vancomycin16	0.409	0.082
Rv2680_day32	0.962	0.862
H37Rv_KO_MarP	0.069	0.158
hypoxia_3wks	-0.73	-0.383
hypoxia_6wks	-0.079	-0.136
glycerol	-0.762	-1.871
cholesterol	-0.144	-1.108
AJ	0.849	-1.257
Bibs02	0.188	-0.184
Bibs02c	1.173	0.099
BL6	1.019	1.642
BL6a	1.633	1.119
BXD01	0.578	1.186
BXD010	0.796	1.693
BXD011	2.605	0.977
BXD03	1.583	1.352
BXD04	1.206	1.079
BXD05	0.811	1.093
BXD06	1.011	1.113
BXD07	1.313	1.346
BXD08	0.994	1.232
BXD09	0.777	1.227
CAST	0.566	0.325
CCcont	0.79	1.792
DS01	0.503	0.128
DS02	0.487	0.785
DS04	1.088	-1.078
DS0c	0.544	0.017
GP01	0.688	1.26
GP02	0.101	1.64
GP0c	0.118	-0.064
NOD	1.526	0.958
NZO	0.457	0.53
PWK	0.128	-0.396
H37Rv_KO_CtpC	0.805	-0.221
H37Rv_KO_CtpD	2.513	1.855
H37Rv_KO_Rv1272	1.842	0.476
H37Rv_KO_SugABC	2.029	1.616
H37Rv_KO_MbtN	0.753	-0.531
Trans05	1.298	0.307
macrophage_unactivated	0.508	0.013
IL1	-0.4	1.154
Rapamycin	0.313	0.608
Tcell	0.772	-0.306
GMCSF	1.648	0.726
IFNab	0.671	0.457
IFNg	0.214	0.011
IFNg_GMCSF1	0.198	0.924
Rv1432_day32	0.435	1.644
Rv1565c_day32	-2.3	-0.94
secA2_input	-0.822	0.416
delta_Rv3594	0.176	0.018
delta_Rv3717	0.841	-0.244
delta_Rv3811	-0.052	-1.258
delta_Rv0954	0.863	0.039
PonA1	-0.166	0.007
EccD1_KO	0.115	0.069
EspI_KO	0.083	-0.553
PE35_KO	0.344	-0.082
PPE68_KO	0.429	-0.045
glycerol2	1.023	0.406
lignocerate	1.24	0.897
oleate	0.119	-0.418
phosphatidylcholine	1.042	0.318
acetate	0.853	0.73
glucAc	0.887	0.533
Rv0950ko	1.269	0.567
Rv1096ko	0.145	0.437
Rv3684ko	0.881	0.18
delta_otsA_trehalose	-0.281	1.104