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 Rv2778c/-:

update plot	correlation	link to info on gene
Rv2275/-	(cc=0.5281)	info on Rv2275/-
Rv0844c/narL	(cc=0.5199)	info on Rv0844c/narL
Rv0260c/-	(cc=0.5162)	info on Rv0260c/-
Rv2809/-	(cc=0.5132)	info on Rv2809/-
Rv2481c/-	(cc=0.4888)	info on Rv2481c/-
Rv1583c/-	(cc=0.4835)	info on Rv1583c/-
Rv1504c/-	(cc=0.479)	info on Rv1504c/-
Rv1167c/-	(cc=0.4756)	info on Rv1167c/-
Rv1548c/PPE21	(cc=0.4716)	info on Rv1548c/PPE21
Rv2818c/-	(cc=0.466)	info on Rv2818c/-

Correlation of Rv2778c/- with Rv1504c/-

Normalized LFCs for Rv2778c/-:
(description and provenance of datasets)

	Rv2778c/-	Rv1504c/-
Fe_supp_jason_reseq	0.668	0.161
low_pH_jason_reseq	0.517	-0.294
NO_jason_reseq	-0.087	-0.11
B6_jason_reseq	-0.436	-0.505
MHCII_jason_reseq	-0.471	0.005
Isoniazid02	-0.291	0.047
Rifampicin4	-0.046	-0.349
Ethambutol3	-0.251	-0.06
Meropenem3	-0.732	-0.034
Vancomycin16	-0.854	-0.218
Rv2680_day32	-2.125	-0.607
H37Rv_KO_MarP	0.062	-0.364
hypoxia_3wks	0.267	0.471
hypoxia_6wks	0.079	0.255
glycerol	0.569	0.284
cholesterol	-0.068	0.316
AJ	0.413	0.429
Bibs02	-0.971	0.677
Bibs02c	-1.384	0.218
BL6	0.865	1.455
BL6a	0.306	1.218
BXD01	0.507	0.632
BXD010	0.37	1.204
BXD011	0.447	1.111
BXD03	-0.051	1.778
BXD04	0.374	1.499
BXD05	1.071	1.413
BXD06	1.063	0.825
BXD07	0.951	1.414
BXD08	1.473	1.164
BXD09	0.809	1.357
CAST	-0.367	0.649
CCcont	0.794	0.778
DS01	0.106	1.304
DS02	0.266	1.23
DS04	-0.752	1.085
DS0c	-1.185	1.669
GP01	0.563	0.956
GP02	-0.072	1.205
GP0c	-0.651	0.583
NOD	-2.11	-0.586
NZO	-0.056	0.787
PWK	-0.608	0.409
H37Rv_KO_CtpC	1.184	1.422
H37Rv_KO_CtpD	0.134	1.016
H37Rv_KO_Rv1272	1.414	2.168
H37Rv_KO_SugABC	-1.521	0.981
H37Rv_KO_MbtN	2.179	1.97
Trans05	0.036	1.837
macrophage_unactivated	0.483	-0.524
IL1	-1.121	0.053
Rapamycin	-0.973	0.068
Tcell	-0.254	0.43
GMCSF	0.768	0.198
IFNab	-0.115	-0.215
IFNg	1.077	0.441
IFNg_GMCSF1	-0.606	0.352
Rv1432_day32	-0.043	0.068
Rv1565c_day32	-0.665	0.687
secA2_input	-2.037	-0.479
delta_Rv3594	-0.343	0.575
delta_Rv3717	-1.024	0.503
delta_Rv3811	-1.063	0.712
delta_Rv0954	-1.128	0.37
PonA1	-0.689	0.508
EccD1_KO	0.22	-0.141
EspI_KO	0.066	0.488
PE35_KO	0.811	0.543
PPE68_KO	0.579	0.275
glycerol2	0.479	0.433
lignocerate	0.491	-0.051
oleate	0.109	0.737
phosphatidylcholine	0.543	0.678
acetate	0.449	-0.389
glucAc	0.337	-0.673
Rv0950ko	-0.983	-0.567
Rv1096ko	-1.336	-1.378
Rv3684ko	-1.418	-0.796
delta_otsA_trehalose	-0.367	0.464