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 Rv0147/-:

update plot	correlation	link to info on gene
Rv1411c/lprG	(cc=0.4297)	info on Rv1411c/lprG
Rv1780/-	(cc=0.4268)	info on Rv1780/-
Rv3784/-	(cc=0.4248)	info on Rv3784/-
Rv1892/-	(cc=0.416)	info on Rv1892/-
Rv2351c/plcA	(cc=0.4046)	info on Rv2351c/plcA
Rv1885c/-	(cc=0.4036)	info on Rv1885c/-
Rv0207c/-	(cc=0.3923)	info on Rv0207c/-
Rv3486/-	(cc=0.3898)	info on Rv3486/-
Rv0473/-	(cc=0.3815)	info on Rv0473/-
Rv0476/-	(cc=0.3814)	info on Rv0476/-

Correlation of Rv0147/- with Rv1780/-

Normalized LFCs for Rv0147/-:
(description and provenance of datasets)

	Rv0147/-	Rv1780/-
Fe_supp_jason_reseq	0.919	-1.778
low_pH_jason_reseq	-1.782	-0.34
NO_jason_reseq	-1.129	-2.084
B6_jason_reseq	-0.01	-3.549
MHCII_jason_reseq	1.187	-0.977
Isoniazid02	0.639	2.506
Rifampicin4	-0.777	-0.639
Ethambutol3	0.246	1.978
Meropenem3	0.262	0.727
Vancomycin16	-0.584	-0.491
Rv2680_day32	0.786	1.835
H37Rv_KO_MarP	0.13	-0.267
hypoxia_3wks	1.069	1.288
hypoxia_6wks	0.9	3.454
glycerol	1.162	2.188
cholesterol	0.14	2.714
AJ	0.355	-0.768
Bibs02	-0.318	1.197
Bibs02c	0.194	1.17
BL6	-0.157	1.216
BL6a	0.066	1.807
BXD01	0.268	2.028
BXD010	0.521	1.29
BXD011	-0.06	3.362
BXD03	0.352	1.659
BXD04	0.385	2.619
BXD05	0.15	1.815
BXD06	0.0	3.056
BXD07	0.133	1.865
BXD08	0.287	1.959
BXD09	-0.073	2.253
CAST	-0.459	-1.922
CCcont	-0.013	0.954
DS01	-1.193	0.435
DS02	0.235	-1.03
DS04	-1.649	0.232
DS0c	-0.965	0.74
GP01	0.615	2.552
GP02	0.963	2.909
GP0c	0.729	2.635
NOD	-0.029	-1.01
NZO	0.465	-0.123
PWK	0.959	-1.451
H37Rv_KO_CtpC	-0.135	1.377
H37Rv_KO_CtpD	0.132	-0.826
H37Rv_KO_Rv1272	0.255	1.908
H37Rv_KO_SugABC	-0.069	2.077
H37Rv_KO_MbtN	1.51	3.96
Trans05	0.593	2.432
macrophage_unactivated	0.11	-0.189
IL1	-1.02	-1.264
Rapamycin	0.288	-0.85
Tcell	-0.795	2.444
GMCSF	0.119	-1.009
IFNab	1.366	0.641
IFNg	-0.494	-1.732
IFNg_GMCSF1	-0.597	-3.126
Rv1432_day32	0.619	2.211
Rv1565c_day32	0.693	1.35
secA2_input	0.094	-1.45
delta_Rv3594	-0.038	1.334
delta_Rv3717	0.233	2.956
delta_Rv3811	0.175	1.866
delta_Rv0954	-0.173	-1.335
PonA1	-0.5	-2.652
EccD1_KO	-0.562	-2.993
EspI_KO	-0.756	-2.21
PE35_KO	-0.951	-2.634
PPE68_KO	-0.934	-2.102
glycerol2	1.251	0.483
lignocerate	0.857	0.36
oleate	0.571	0.034
phosphatidylcholine	0.472	0.653
acetate	0.346	-0.374
glucAc	0.194	-0.518
Rv0950ko	0.075	-2.783
Rv1096ko	-0.377	-3.685
Rv3684ko	-0.357	-2.731
delta_otsA_trehalose	-0.577	-1.034