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 Rv2481c/-

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

	Rv2778c/-	Rv2481c/-
Fe_supp_jason_reseq	0.668	0.434
low_pH_jason_reseq	0.517	-0.092
NO_jason_reseq	-0.087	-0.593
B6_jason_reseq	-0.436	-0.233
MHCII_jason_reseq	-0.471	-0.51
Isoniazid02	-0.291	0.351
Rifampicin4	-0.046	0.024
Ethambutol3	-0.251	0.214
Meropenem3	-0.732	0.055
Vancomycin16	-0.854	0.703
Rv2680_day32	-2.125	0.682
H37Rv_KO_MarP	0.062	-0.497
hypoxia_3wks	0.267	0.08
hypoxia_6wks	0.079	0.921
glycerol	0.569	0.159
cholesterol	-0.068	0.442
AJ	0.413	0.321
Bibs02	-0.971	-1.599
Bibs02c	-1.384	0.573
BL6	0.865	1.853
BL6a	0.306	1.821
BXD01	0.507	0.866
BXD010	0.37	1.509
BXD011	0.447	1.004
BXD03	-0.051	1.65
BXD04	0.374	0.4
BXD05	1.071	1.885
BXD06	1.063	1.123
BXD07	0.951	1.091
BXD08	1.473	1.263
BXD09	0.809	1.301
CAST	-0.367	0.659
CCcont	0.794	1.896
DS01	0.106	-0.161
DS02	0.266	0.663
DS04	-0.752	-1.81
DS0c	-1.185	0.347
GP01	0.563	0.995
GP02	-0.072	1.273
GP0c	-0.651	0.217
NOD	-2.11	0.407
NZO	-0.056	-0.049
PWK	-0.608	0.804
H37Rv_KO_CtpC	1.184	0.701
H37Rv_KO_CtpD	0.134	-1.316
H37Rv_KO_Rv1272	1.414	1.848
H37Rv_KO_SugABC	-1.521	-1.683
H37Rv_KO_MbtN	2.179	0.09
Trans05	0.036	1.478
macrophage_unactivated	0.483	0.445
IL1	-1.121	0.478
Rapamycin	-0.973	0.359
Tcell	-0.254	0.342
GMCSF	0.768	0.19
IFNab	-0.115	0.366
IFNg	1.077	0.182
IFNg_GMCSF1	-0.606	0.201
Rv1432_day32	-0.043	0.013
Rv1565c_day32	-0.665	-0.142
secA2_input	-2.037	-0.509
delta_Rv3594	-0.343	0.031
delta_Rv3717	-1.024	-1.226
delta_Rv3811	-1.063	-0.415
delta_Rv0954	-1.128	-0.849
PonA1	-0.689	-0.911
EccD1_KO	0.22	0.635
EspI_KO	0.066	0.508
PE35_KO	0.811	0.691
PPE68_KO	0.579	0.781
glycerol2	0.479	1.184
lignocerate	0.491	1.4
oleate	0.109	0.388
phosphatidylcholine	0.543	1.066
acetate	0.449	0.894
glucAc	0.337	0.948
Rv0950ko	-0.983	0.434
Rv1096ko	-1.336	-0.163
Rv3684ko	-1.418	0.252
delta_otsA_trehalose	-0.367	0.873