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 Rv2562/-:

update plot	correlation	link to info on gene
Rv2276/cyp121	(cc=0.5556)	info on Rv2276/cyp121
Rv2833c/ugpB	(cc=0.5305)	info on Rv2833c/ugpB
Rv1954A/-	(cc=0.5253)	info on Rv1954A/-
Rv1526c/-	(cc=0.5193)	info on Rv1526c/-
Rv0698/-	(cc=0.4958)	info on Rv0698/-
Rv0792c/-	(cc=0.4799)	info on Rv0792c/-
Rv0349/-	(cc=0.4789)	info on Rv0349/-
Rv2253/-	(cc=0.4763)	info on Rv2253/-
Rv2040c/-	(cc=0.4693)	info on Rv2040c/-
Rv3429/PPE59	(cc=0.4624)	info on Rv3429/PPE59

Correlation of Rv2562/- with Rv2040c/-

Normalized LFCs for Rv2562/-:
(description and provenance of datasets)

	Rv2562/-	Rv2040c/-
Fe_supp_jason_reseq	-0.226	0.032
low_pH_jason_reseq	-0.87	0.291
NO_jason_reseq	-0.386	-0.399
B6_jason_reseq	-1.875	-0.415
MHCII_jason_reseq	-0.528	-1.451
Isoniazid02	0.224	-0.255
Rifampicin4	0.441	0.252
Ethambutol3	0.045	-0.27
Meropenem3	0.401	-0.266
Vancomycin16	0.647	0.247
Rv2680_day32	0.503	0.687
H37Rv_KO_MarP	0.422	-0.052
hypoxia_3wks	-0.471	0.467
hypoxia_6wks	0.044	-0.065
glycerol	-1.226	-0.23
cholesterol	-0.097	-0.378
AJ	-0.022	0.513
Bibs02	0.743	-2.245
Bibs02c	-1.088	-1.391
BL6	0.954	1.183
BL6a	-0.293	-0.03
BXD01	0.195	0.84
BXD010	0.7	0.656
BXD011	0.647	2.53
BXD03	0.533	0.755
BXD04	0.614	0.091
BXD05	0.613	0.598
BXD06	1.012	0.328
BXD07	0.602	0.042
BXD08	0.675	0.118
BXD09	0.787	0.87
CAST	0.719	-0.425
CCcont	0.349	1.059
DS01	-0.44	-1.131
DS02	-0.05	-0.792
DS04	0.658	-0.468
DS0c	0.209	-0.247
GP01	0.295	-0.601
GP02	0.362	-1.109
GP0c	0.024	-0.865
NOD	1.036	0.76
NZO	-0.275	-0.727
PWK	0.371	0.06
H37Rv_KO_CtpC	0.923	0.567
H37Rv_KO_CtpD	1.291	0.039
H37Rv_KO_Rv1272	0.843	1.84
H37Rv_KO_SugABC	0.168	-0.918
H37Rv_KO_MbtN	-0.83	-0.421
Trans05	1.309	1.52
macrophage_unactivated	1.446	0.325
IL1	0.528	0.089
Rapamycin	0.712	-0.046
Tcell	0.613	0.147
GMCSF	0.04	0.729
IFNab	-0.339	0.091
IFNg	0.858	-0.385
IFNg_GMCSF1	0.575	0.826
Rv1432_day32	-0.332	-0.415
Rv1565c_day32	-0.423	-0.584
secA2_input	-1.929	-2.616
delta_Rv3594	0.153	0.352
delta_Rv3717	-0.077	0.044
delta_Rv3811	0.125	0.696
delta_Rv0954	0.021	-0.439
PonA1	0.853	0.212
EccD1_KO	0.441	0.605
EspI_KO	0.476	0.727
PE35_KO	0.825	1.164
PPE68_KO	0.723	1.072
glycerol2	1.247	-0.273
lignocerate	1.249	0.012
oleate	0.943	-0.597
phosphatidylcholine	1.424	0.193
acetate	1.077	-0.032
glucAc	0.617	0.105
Rv0950ko	-0.585	-0.645
Rv1096ko	-0.368	-1.23
Rv3684ko	0.079	-2.021
delta_otsA_trehalose	-0.634	-0.103