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 Rv1548c/PPE21

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

	Rv2778c/-	Rv1548c/PPE21
Fe_supp_jason_reseq	0.668	0.44
low_pH_jason_reseq	0.517	-0.494
NO_jason_reseq	-0.087	0.399
B6_jason_reseq	-0.436	-0.968
MHCII_jason_reseq	-0.471	-1.76
Isoniazid02	-0.291	0.049
Rifampicin4	-0.046	0.439
Ethambutol3	-0.251	-0.533
Meropenem3	-0.732	-0.073
Vancomycin16	-0.854	0.0
Rv2680_day32	-2.125	-0.368
H37Rv_KO_MarP	0.062	0.268
hypoxia_3wks	0.267	0.243
hypoxia_6wks	0.079	-0.177
glycerol	0.569	0.143
cholesterol	-0.068	0.268
AJ	0.413	-0.467
Bibs02	-0.971	0.098
Bibs02c	-1.384	-0.517
BL6	0.865	1.274
BL6a	0.306	0.753
BXD01	0.507	0.409
BXD010	0.37	0.83
BXD011	0.447	0.813
BXD03	-0.051	0.677
BXD04	0.374	0.647
BXD05	1.071	1.082
BXD06	1.063	0.879
BXD07	0.951	1.053
BXD08	1.473	0.988
BXD09	0.809	1.13
CAST	-0.367	0.933
CCcont	0.794	0.861
DS01	0.106	0.043
DS02	0.266	-0.588
DS04	-0.752	0.035
DS0c	-1.185	-1.042
GP01	0.563	0.92
GP02	-0.072	1.1
GP0c	-0.651	1.231
NOD	-2.11	1.565
NZO	-0.056	0.072
PWK	-0.608	0.139
H37Rv_KO_CtpC	1.184	1.99
H37Rv_KO_CtpD	0.134	1.77
H37Rv_KO_Rv1272	1.414	2.196
H37Rv_KO_SugABC	-1.521	1.088
H37Rv_KO_MbtN	2.179	2.146
Trans05	0.036	2.226
macrophage_unactivated	0.483	0.524
IL1	-1.121	0.492
Rapamycin	-0.973	0.193
Tcell	-0.254	0.401
GMCSF	0.768	1.159
IFNab	-0.115	0.671
IFNg	1.077	1.013
IFNg_GMCSF1	-0.606	1.071
Rv1432_day32	-0.043	0.209
Rv1565c_day32	-0.665	-0.22
secA2_input	-2.037	-0.512
delta_Rv3594	-0.343	0.18
delta_Rv3717	-1.024	0.088
delta_Rv3811	-1.063	-0.311
delta_Rv0954	-1.128	0.026
PonA1	-0.689	-0.325
EccD1_KO	0.22	-0.217
EspI_KO	0.066	-0.031
PE35_KO	0.811	-0.128
PPE68_KO	0.579	0.0
glycerol2	0.479	-0.028
lignocerate	0.491	0.564
oleate	0.109	-0.362
phosphatidylcholine	0.543	0.395
acetate	0.449	0.721
glucAc	0.337	0.657
Rv0950ko	-0.983	0.229
Rv1096ko	-1.336	-0.57
Rv3684ko	-1.418	-0.789
delta_otsA_trehalose	-0.367	-0.25