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 Rv0785/-:

update plot	correlation	link to info on gene
Rv3364c/-	(cc=0.5439)	info on Rv3364c/-
Rv3189/-	(cc=0.485)	info on Rv3189/-
Rv0113/gmhA	(cc=0.4771)	info on Rv0113/gmhA
Rv0233/nrdB	(cc=0.468)	info on Rv0233/nrdB
Rv3554/fdxB	(cc=0.4508)	info on Rv3554/fdxB
Rv0592/mce2D	(cc=0.435)	info on Rv0592/mce2D
Rv3770c/-	(cc=0.4317)	info on Rv3770c/-
Rv3637/-	(cc=0.4306)	info on Rv3637/-
Rv2432c/-	(cc=0.4242)	info on Rv2432c/-
Rv1736c/narX	(cc=0.4237)	info on Rv1736c/narX

Correlation of Rv0785/- with Rv3189/-

Normalized LFCs for Rv0785/-:
(description and provenance of datasets)

	Rv0785/-	Rv3189/-
Fe_supp_jason_reseq	0.758	0.772
low_pH_jason_reseq	-0.328	-0.999
NO_jason_reseq	-0.701	-0.478
B6_jason_reseq	0.892	0.781
MHCII_jason_reseq	1.296	0.581
Isoniazid02	0.067	-0.464
Rifampicin4	0.325	0.054
Ethambutol3	-0.382	-0.096
Meropenem3	-0.71	0.024
Vancomycin16	0.202	-0.027
Rv2680_day32	-0.206	-0.389
H37Rv_KO_MarP	0.0	0.047
hypoxia_3wks	-0.056	0.044
hypoxia_6wks	-0.029	-0.023
glycerol	-0.471	-0.503
cholesterol	0.286	-0.052
AJ	-0.129	0.227
Bibs02	1.029	0.468
Bibs02c	0.694	0.067
BL6	-0.426	0.155
BL6a	0.0	0.056
BXD01	-0.098	-0.562
BXD010	-0.012	0.212
BXD011	0.456	-0.076
BXD03	0.404	-0.958
BXD04	-0.288	0.14
BXD05	-0.254	0.084
BXD06	0.203	0.279
BXD07	0.012	0.176
BXD08	0.047	-0.505
BXD09	0.038	-0.027
CAST	0.656	0.606
CCcont	-0.528	-0.084
DS01	1.239	0.406
DS02	1.303	1.09
DS04	1.677	0.173
DS0c	1.266	0.33
GP01	-0.388	-0.436
GP02	0.486	0.244
GP0c	-0.599	-1.256
NOD	0.428	0.511
NZO	0.191	0.184
PWK	0.702	0.05
H37Rv_KO_CtpC	-0.748	-0.125
H37Rv_KO_CtpD	-0.133	0.511
H37Rv_KO_Rv1272	-0.796	-0.028
H37Rv_KO_SugABC	-1.292	-2.002
H37Rv_KO_MbtN	0.518	-0.939
Trans05	-0.866	0.477
macrophage_unactivated	0.306	0.013
IL1	0.718	0.679
Rapamycin	0.509	0.657
Tcell	0.541	-0.632
GMCSF	0.098	0.314
IFNab	0.148	0.583
IFNg	0.382	0.345
IFNg_GMCSF1	0.726	0.663
Rv1432_day32	0.89	0.733
Rv1565c_day32	0.381	0.256
secA2_input	0.157	0.111
delta_Rv3594	0.948	0.941
delta_Rv3717	0.78	0.159
delta_Rv3811	0.631	0.358
delta_Rv0954	0.293	0.388
PonA1	-0.127	1.267
EccD1_KO	0.069	1.592
EspI_KO	0.451	1.494
PE35_KO	0.236	1.205
PPE68_KO	-0.205	1.142
glycerol2	-0.223	-0.914
lignocerate	-0.256	-0.609
oleate	-0.373	-0.882
phosphatidylcholine	-0.108	-0.902
acetate	-0.407	-0.763
glucAc	-0.389	-0.317
Rv0950ko	-0.419	-0.018
Rv1096ko	0.486	-0.217
Rv3684ko	-0.321	-1.022
delta_otsA_trehalose	1.004	0.337