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 Rv1482c/-:

update plot	correlation	link to info on gene
Rv1215c/-	(cc=0.6263)	info on Rv1215c/-
Rv1616/-	(cc=0.5739)	info on Rv1616/-
Rv0149/-	(cc=0.5435)	info on Rv0149/-
Rv1164/narI	(cc=0.5358)	info on Rv1164/narI
Rv1816/-	(cc=0.5273)	info on Rv1816/-
Rv2305/-	(cc=0.5035)	info on Rv2305/-
Rv1831/-	(cc=0.4994)	info on Rv1831/-
Rv3398c/idsA1	(cc=0.4962)	info on Rv3398c/idsA1
Rv2389c/rpfD	(cc=0.4939)	info on Rv2389c/rpfD
Rv2451/-	(cc=0.4923)	info on Rv2451/-

Correlation of Rv1482c/- with Rv1164/narI

Normalized LFCs for Rv1482c/-:
(description and provenance of datasets)

	Rv1482c/-	Rv1164/narI
Fe_supp_jason_reseq	0.286	0.366
low_pH_jason_reseq	-0.639	-0.547
NO_jason_reseq	0.417	0.105
B6_jason_reseq	-0.856	-1.121
MHCII_jason_reseq	-1.002	-0.146
Isoniazid02	-0.009	-0.154
Rifampicin4	0.173	-0.087
Ethambutol3	1.923	1.415
Meropenem3	1.896	3.012
Vancomycin16	0.305	-0.106
Rv2680_day32	0.067	0.145
H37Rv_KO_MarP	0.024	0.588
hypoxia_3wks	0.231	0.502
hypoxia_6wks	-0.013	0.111
glycerol	-0.257	-0.633
cholesterol	-0.321	-0.141
AJ	0.039	0.879
Bibs02	-0.729	0.281
Bibs02c	-0.061	-0.056
BL6	0.836	-0.306
BL6a	0.509	0.382
BXD01	0.713	-0.297
BXD010	0.887	0.261
BXD011	0.125	0.144
BXD03	0.825	-0.275
BXD04	0.434	-0.492
BXD05	0.979	0.282
BXD06	0.276	-0.101
BXD07	0.398	0.097
BXD08	0.348	0.369
BXD09	0.482	0.116
CAST	-0.264	0.0
CCcont	0.1	-0.188
DS01	-0.732	-0.096
DS02	-0.452	-0.34
DS04	0.427	0.406
DS0c	-0.222	0.085
GP01	-0.306	0.591
GP02	0.225	0.459
GP0c	0.286	-0.635
NOD	-0.187	-0.138
NZO	0.477	-0.179
PWK	1.599	-0.162
H37Rv_KO_CtpC	0.9	1.16
H37Rv_KO_CtpD	0.273	0.05
H37Rv_KO_Rv1272	0.552	0.028
H37Rv_KO_SugABC	0.339	1.027
H37Rv_KO_MbtN	0.431	-0.085
Trans05	1.091	-0.108
macrophage_unactivated	-0.36	-0.025
IL1	0.344	-0.113
Rapamycin	-0.144	0.442
Tcell	0.551	-0.388
GMCSF	0.605	0.811
IFNab	0.121	0.435
IFNg	0.224	0.633
IFNg_GMCSF1	0.842	-0.27
Rv1432_day32	1.348	-0.017
Rv1565c_day32	0.619	0.477
secA2_input	-0.791	-0.225
delta_Rv3594	-0.552	-1.014
delta_Rv3717	-0.644	-1.274
delta_Rv3811	-0.761	-1.06
delta_Rv0954	-0.652	-0.337
PonA1	0.016	-1.005
EccD1_KO	1.181	0.855
EspI_KO	0.65	0.568
PE35_KO	0.875	0.373
PPE68_KO	0.873	0.589
glycerol2	-0.328	-0.035
lignocerate	-0.412	0.086
oleate	0.388	0.542
phosphatidylcholine	-0.146	0.266
acetate	-0.818	-0.241
glucAc	-0.968	-0.187
Rv0950ko	0.323	0.163
Rv1096ko	0.036	0.299
Rv3684ko	0.35	-0.635
delta_otsA_trehalose	-1.002	-0.57