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 Rv0473/-

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

	Rv0147/-	Rv0473/-
Fe_supp_jason_reseq	0.919	0.0
low_pH_jason_reseq	-1.782	-0.89
NO_jason_reseq	-1.129	1.423
B6_jason_reseq	-0.01	0.131
MHCII_jason_reseq	1.187	0.389
Isoniazid02	0.639	-0.725
Rifampicin4	-0.777	-0.149
Ethambutol3	0.246	0.198
Meropenem3	0.262	0.93
Vancomycin16	-0.584	-0.419
Rv2680_day32	0.786	2.661
H37Rv_KO_MarP	0.13	0.428
hypoxia_3wks	1.069	0.961
hypoxia_6wks	0.9	1.036
glycerol	1.162	-0.275
cholesterol	0.14	-0.604
AJ	0.355	-0.247
Bibs02	-0.318	-0.526
Bibs02c	0.194	0.629
BL6	-0.157	0.909
BL6a	0.066	1.469
BXD01	0.268	1.895
BXD010	0.521	1.942
BXD011	-0.06	2.878
BXD03	0.352	0.943
BXD04	0.385	1.926
BXD05	0.15	1.727
BXD06	0.0	2.558
BXD07	0.133	2.011
BXD08	0.287	1.493
BXD09	-0.073	2.018
CAST	-0.459	-0.716
CCcont	-0.013	0.507
DS01	-1.193	-0.638
DS02	0.235	-0.128
DS04	-1.649	0.219
DS0c	-0.965	0.112
GP01	0.615	2.656
GP02	0.963	3.016
GP0c	0.729	2.1
NOD	-0.029	-0.197
NZO	0.465	0.871
PWK	0.959	1.182
H37Rv_KO_CtpC	-0.135	0.271
H37Rv_KO_CtpD	0.132	0.745
H37Rv_KO_Rv1272	0.255	0.794
H37Rv_KO_SugABC	-0.069	0.687
H37Rv_KO_MbtN	1.51	1.304
Trans05	0.593	1.506
macrophage_unactivated	0.11	-0.417
IL1	-1.02	-0.16
Rapamycin	0.288	0.402
Tcell	-0.795	0.671
GMCSF	0.119	1.088
IFNab	1.366	0.145
IFNg	-0.494	0.7
IFNg_GMCSF1	-0.597	0.289
Rv1432_day32	0.619	4.594
Rv1565c_day32	0.693	0.291
secA2_input	0.094	-0.122
delta_Rv3594	-0.038	-0.381
delta_Rv3717	0.233	1.081
delta_Rv3811	0.175	0.476
delta_Rv0954	-0.173	-0.379
PonA1	-0.5	0.048
EccD1_KO	-0.562	0.5
EspI_KO	-0.756	-0.428
PE35_KO	-0.951	-0.438
PPE68_KO	-0.934	-1.046
glycerol2	1.251	0.555
lignocerate	0.857	0.317
oleate	0.571	0.939
phosphatidylcholine	0.472	0.402
acetate	0.346	-0.841
glucAc	0.194	1.132
Rv0950ko	0.075	0.407
Rv1096ko	-0.377	-0.416
Rv3684ko	-0.357	0.016
delta_otsA_trehalose	-0.577	-0.326