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 Rv1075c/-:

update plot	correlation	link to info on gene
Rv1291c/-	(cc=0.599)	info on Rv1291c/-
Rv3170/aofH	(cc=0.5511)	info on Rv3170/aofH
Rv2328/PE23	(cc=0.5508)	info on Rv2328/PE23
Rv2854/-	(cc=0.5395)	info on Rv2854/-
Rv1638A/-	(cc=0.5265)	info on Rv1638A/-
Rv0791c/-	(cc=0.5256)	info on Rv0791c/-
Rv0848/cysK2	(cc=0.5214)	info on Rv0848/cysK2
Rv0621/-	(cc=0.5182)	info on Rv0621/-
Rv3431c/-	(cc=0.5139)	info on Rv3431c/-
Rv2013/-	(cc=0.4982)	info on Rv2013/-

Correlation of Rv1075c/- with Rv1291c/-

Normalized LFCs for Rv1075c/-:
(description and provenance of datasets)

	Rv1075c/-	Rv1291c/-
Fe_supp_jason_reseq	0.058	-0.587
low_pH_jason_reseq	-0.047	0.646
NO_jason_reseq	0.37	2.956
B6_jason_reseq	0.761	2.722
MHCII_jason_reseq	1.053	3.045
Isoniazid02	0.223	-0.265
Rifampicin4	0.655	0.162
Ethambutol3	0.72	-0.344
Meropenem3	-0.019	-0.105
Vancomycin16	-0.013	0.31
Rv2680_day32	0.547	1.533
H37Rv_KO_MarP	-0.272	1.456
hypoxia_3wks	0.0	-0.502
hypoxia_6wks	-0.027	0.173
glycerol	0.059	-0.398
cholesterol	0.005	-0.358
AJ	0.708	-0.422
Bibs02	0.579	-1.816
Bibs02c	0.621	-0.229
BL6	0.098	-2.27
BL6a	0.168	-0.762
BXD01	-0.325	-1.445
BXD010	-0.301	-1.659
BXD011	0.236	-2.209
BXD03	-0.578	-2.802
BXD04	-0.563	-1.034
BXD05	0.092	-2.275
BXD06	-0.313	-1.974
BXD07	-0.532	-2.312
BXD08	-0.402	-0.294
BXD09	-0.432	-2.166
CAST	0.042	-0.257
CCcont	-0.414	-2.402
DS01	0.217	-0.371
DS02	0.244	-1.126
DS04	0.443	0.849
DS0c	0.475	-0.368
GP01	-1.729	-3.926
GP02	-0.263	-2.833
GP0c	-0.827	-3.286
NOD	-0.129	-0.555
NZO	-0.441	-0.579
PWK	0.166	-0.308
H37Rv_KO_CtpC	-0.547	-2.346
H37Rv_KO_CtpD	-1.338	-4.119
H37Rv_KO_Rv1272	-0.365	0.093
H37Rv_KO_SugABC	-0.751	-2.458
H37Rv_KO_MbtN	0.507	-2.326
Trans05	0.398	-2.857
macrophage_unactivated	0.455	-2.661
IL1	-0.018	-2.058
Rapamycin	-0.107	-1.755
Tcell	-0.316	-0.205
GMCSF	-0.016	0.0
IFNab	0.018	-1.246
IFNg	-0.259	-2.336
IFNg_GMCSF1	0.198	1.467
Rv1432_day32	-0.669	-0.254
Rv1565c_day32	-0.333	-0.297
secA2_input	0.817	0.066
delta_Rv3594	1.462	0.991
delta_Rv3717	1.354	1.847
delta_Rv3811	1.286	3.618
delta_Rv0954	1.035	1.875
PonA1	0.925	2.223
EccD1_KO	0.497	0.536
EspI_KO	-0.288	1.058
PE35_KO	-0.158	0.309
PPE68_KO	0.275	-0.051
glycerol2	-0.352	-0.801
lignocerate	-0.084	-0.697
oleate	0.16	-0.098
phosphatidylcholine	-0.097	-0.441
acetate	-0.351	-1.596
glucAc	-0.716	-0.826
Rv0950ko	-0.286	0.7
Rv1096ko	0.024	0.383
Rv3684ko	-0.026	-0.088
delta_otsA_trehalose	-1.218	0.026