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 Rv2818c/-

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

	Rv2778c/-	Rv2818c/-
Fe_supp_jason_reseq	0.668	0.302
low_pH_jason_reseq	0.517	0.102
NO_jason_reseq	-0.087	-0.213
B6_jason_reseq	-0.436	-0.127
MHCII_jason_reseq	-0.471	0.454
Isoniazid02	-0.291	-0.105
Rifampicin4	-0.046	-0.563
Ethambutol3	-0.251	-0.157
Meropenem3	-0.732	0.02
Vancomycin16	-0.854	0.313
Rv2680_day32	-2.125	-0.316
H37Rv_KO_MarP	0.062	-0.391
hypoxia_3wks	0.267	0.215
hypoxia_6wks	0.079	0.403
glycerol	0.569	-0.363
cholesterol	-0.068	-0.229
AJ	0.413	0.084
Bibs02	-0.971	0.098
Bibs02c	-1.384	0.418
BL6	0.865	0.654
BL6a	0.306	1.184
BXD01	0.507	1.252
BXD010	0.37	1.154
BXD011	0.447	1.407
BXD03	-0.051	1.319
BXD04	0.374	1.015
BXD05	1.071	1.503
BXD06	1.063	1.44
BXD07	0.951	1.573
BXD08	1.473	1.417
BXD09	0.809	1.177
CAST	-0.367	0.596
CCcont	0.794	1.109
DS01	0.106	0.246
DS02	0.266	0.367
DS04	-0.752	0.786
DS0c	-1.185	0.19
GP01	0.563	0.802
GP02	-0.072	0.227
GP0c	-0.651	1.034
NOD	-2.11	0.197
NZO	-0.056	-0.152
PWK	-0.608	-0.578
H37Rv_KO_CtpC	1.184	1.643
H37Rv_KO_CtpD	0.134	2.194
H37Rv_KO_Rv1272	1.414	1.215
H37Rv_KO_SugABC	-1.521	0.93
H37Rv_KO_MbtN	2.179	0.158
Trans05	0.036	0.593
macrophage_unactivated	0.483	0.407
IL1	-1.121	-0.11
Rapamycin	-0.973	0.074
Tcell	-0.254	0.381
GMCSF	0.768	1.323
IFNab	-0.115	0.251
IFNg	1.077	0.604
IFNg_GMCSF1	-0.606	-0.277
Rv1432_day32	-0.043	0.846
Rv1565c_day32	-0.665	0.445
secA2_input	-2.037	-0.495
delta_Rv3594	-0.343	1.175
delta_Rv3717	-1.024	0.828
delta_Rv3811	-1.063	0.659
delta_Rv0954	-1.128	0.028
PonA1	-0.689	0.824
EccD1_KO	0.22	0.178
EspI_KO	0.066	0.767
PE35_KO	0.811	1.561
PPE68_KO	0.579	1.872
glycerol2	0.479	-0.122
lignocerate	0.491	0.038
oleate	0.109	-0.03
phosphatidylcholine	0.543	0.262
acetate	0.449	0.103
glucAc	0.337	-0.101
Rv0950ko	-0.983	-0.832
Rv1096ko	-1.336	-0.501
Rv3684ko	-1.418	-1.071
delta_otsA_trehalose	-0.367	0.459