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 Rv0944/-:

update plot	correlation	link to info on gene
Rv2833c/ugpB	(cc=0.4935)	info on Rv2833c/ugpB
Rv3528c/-	(cc=0.4688)	info on Rv3528c/-
Rv3576/lppH	(cc=0.4545)	info on Rv3576/lppH
Rv0480c/-	(cc=0.4318)	info on Rv0480c/-
Rv0927c/-	(cc=0.3999)	info on Rv0927c/-
Rv1473A/-	(cc=0.3975)	info on Rv1473A/-
Rv2161c/-	(cc=0.3939)	info on Rv2161c/-
Rv0055/rpsR1	(cc=0.3927)	info on Rv0055/rpsR1
Rv2668/-	(cc=0.3777)	info on Rv2668/-
Rv3123/-	(cc=0.3772)	info on Rv3123/-

Correlation of Rv0944/- with Rv0480c/-

Normalized LFCs for Rv0944/-:
(description and provenance of datasets)

	Rv0944/-	Rv0480c/-
Fe_supp_jason_reseq	-0.706	-0.731
low_pH_jason_reseq	-0.811	-1.191
NO_jason_reseq	0.475	0.336
B6_jason_reseq	-0.843	-0.22
MHCII_jason_reseq	1.757	0.055
Isoniazid02	0.474	0.164
Rifampicin4	1.11	0.439
Ethambutol3	0.564	0.987
Meropenem3	0.779	-0.078
Vancomycin16	1.231	0.554
Rv2680_day32	-0.351	0.0
H37Rv_KO_MarP	0.368	0.055
hypoxia_3wks	-0.73	-0.778
hypoxia_6wks	0.445	-0.917
glycerol	1.185	1.192
cholesterol	0.465	0.465
AJ	1.081	-0.408
Bibs02	0.387	-0.322
Bibs02c	0.483	-0.036
BL6	1.849	0.22
BL6a	1.253	-0.195
BXD01	1.82	-0.098
BXD010	0.101	0.006
BXD011	0.398	-0.896
BXD03	1.526	-0.024
BXD04	1.187	-0.163
BXD05	-0.337	-0.573
BXD06	0.967	-0.51
BXD07	0.686	-0.572
BXD08	1.104	-0.368
BXD09	0.814	-0.617
CAST	-0.511	-0.729
CCcont	1.548	0.241
DS01	0.082	0.231
DS02	0.66	0.383
DS04	0.689	0.989
DS0c	0.31	-0.737
GP01	0.099	-1.979
GP02	0.223	-0.244
GP0c	-1.839	-1.204
NOD	-0.192	-0.296
NZO	-0.787	-1.182
PWK	-0.297	-0.786
H37Rv_KO_CtpC	1.567	0.251
H37Rv_KO_CtpD	-1.485	-0.438
H37Rv_KO_Rv1272	1.079	-1.167
H37Rv_KO_SugABC	0.718	-0.15
H37Rv_KO_MbtN	-1.136	-1.304
Trans05	1.133	-1.478
macrophage_unactivated	0.978	0.019
IL1	0.119	0.169
Rapamycin	0.092	-0.058
Tcell	1.193	0.205
GMCSF	0.333	0.385
IFNab	-0.593	-0.139
IFNg	0.238	0.118
IFNg_GMCSF1	-0.955	-0.465
Rv1432_day32	-1.027	-0.136
Rv1565c_day32	-1.164	-1.158
secA2_input	0.119	0.326
delta_Rv3594	0.347	-0.191
delta_Rv3717	-0.995	-0.836
delta_Rv3811	-0.665	-0.04
delta_Rv0954	0.43	-0.052
PonA1	-0.675	0.209
EccD1_KO	-0.73	-0.822
EspI_KO	0.781	-0.311
PE35_KO	0.995	-0.893
PPE68_KO	0.214	-1.165
glycerol2	-0.02	-0.078
lignocerate	0.701	0.587
oleate	-0.601	-0.33
phosphatidylcholine	0.525	0.253
acetate	0.121	0.071
glucAc	0.547	0.453
Rv0950ko	0.458	0.0
Rv1096ko	0.875	0.733
Rv3684ko	1.431	0.318
delta_otsA_trehalose	-1.777	-0.807