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 Rv2833c/ugpB

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

	Rv0944/-	Rv2833c/ugpB
Fe_supp_jason_reseq	-0.706	-1.047
low_pH_jason_reseq	-0.811	-0.855
NO_jason_reseq	0.475	-0.496
B6_jason_reseq	-0.843	-2.495
MHCII_jason_reseq	1.757	-1.705
Isoniazid02	0.474	0.323
Rifampicin4	1.11	1.283
Ethambutol3	0.564	0.505
Meropenem3	0.779	0.497
Vancomycin16	1.231	0.939
Rv2680_day32	-0.351	1.035
H37Rv_KO_MarP	0.368	-0.188
hypoxia_3wks	-0.73	0.0
hypoxia_6wks	0.445	-0.234
glycerol	1.185	-0.693
cholesterol	0.465	0.552
AJ	1.081	-0.541
Bibs02	0.387	-0.736
Bibs02c	0.483	-1.429
BL6	1.849	1.972
BL6a	1.253	1.025
BXD01	1.82	0.8
BXD010	0.101	1.237
BXD011	0.398	0.812
BXD03	1.526	1.088
BXD04	1.187	0.67
BXD05	-0.337	0.391
BXD06	0.967	0.91
BXD07	0.686	1.167
BXD08	1.104	1.509
BXD09	0.814	1.334
CAST	-0.511	2.478
CCcont	1.548	1.651
DS01	0.082	-0.551
DS02	0.66	0.699
DS04	0.689	-0.905
DS0c	0.31	-0.506
GP01	0.099	-0.086
GP02	0.223	-0.568
GP0c	-1.839	-0.237
NOD	-0.192	0.0
NZO	-0.787	0.309
PWK	-0.297	-0.915
H37Rv_KO_CtpC	1.567	1.177
H37Rv_KO_CtpD	-1.485	-1.086
H37Rv_KO_Rv1272	1.079	1.385
H37Rv_KO_SugABC	0.718	-0.949
H37Rv_KO_MbtN	-1.136	-0.625
Trans05	1.133	1.851
macrophage_unactivated	0.978	0.65
IL1	0.119	0.392
Rapamycin	0.092	0.921
Tcell	1.193	0.903
GMCSF	0.333	0.731
IFNab	-0.593	0.163
IFNg	0.238	0.216
IFNg_GMCSF1	-0.955	0.17
Rv1432_day32	-1.027	-0.961
Rv1565c_day32	-1.164	-0.24
secA2_input	0.119	0.095
delta_Rv3594	0.347	-0.402
delta_Rv3717	-0.995	-0.802
delta_Rv3811	-0.665	-0.651
delta_Rv0954	0.43	-0.45
PonA1	-0.675	-0.799
EccD1_KO	-0.73	-1.47
EspI_KO	0.781	0.091
PE35_KO	0.995	0.443
PPE68_KO	0.214	0.202
glycerol2	-0.02	0.873
lignocerate	0.701	1.376
oleate	-0.601	0.489
phosphatidylcholine	0.525	1.108
acetate	0.121	1.079
glucAc	0.547	1.205
Rv0950ko	0.458	0.582
Rv1096ko	0.875	0.995
Rv3684ko	1.431	1.588
delta_otsA_trehalose	-1.777	-1.327