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 Rv2596/vapC40:

update plot	correlation	link to info on gene
Rv2490c/PE_PGRS43	(cc=0.4561)	info on Rv2490c/PE_PGRS43
Rv2474c/-	(cc=0.4384)	info on Rv2474c/-
Rv0278c/PE_PGRS3	(cc=0.4204)	info on Rv0278c/PE_PGRS3
Rv0649/fabD2	(cc=0.4066)	info on Rv0649/fabD2
Rv2076c/-	(cc=0.404)	info on Rv2076c/-
Rv2464c/-	(cc=0.3995)	info on Rv2464c/-
Rv2603c/-	(cc=0.3969)	info on Rv2603c/-
Rv3335c/-	(cc=0.3966)	info on Rv3335c/-
Rv2590/fadD9	(cc=0.3951)	info on Rv2590/fadD9
Rv0103c/ctpB	(cc=0.3839)	info on Rv0103c/ctpB

Correlation of Rv2596/vapC40 with Rv2603c/-

Normalized LFCs for Rv2596/vapC40:
(description and provenance of datasets)

	Rv2596/vapC40	Rv2603c/-
Fe_supp_jason_reseq	-0.341	0.0
low_pH_jason_reseq	-1.031	0.0
NO_jason_reseq	-0.383	0.0
B6_jason_reseq	0.031	0.0
MHCII_jason_reseq	0.499	0.0
Isoniazid02	0.792	0.0
Rifampicin4	0.317	0.0
Ethambutol3	0.061	0.0
Meropenem3	0.155	0.0
Vancomycin16	0.493	0.0
Rv2680_day32	0.33	0.0
H37Rv_KO_MarP	-0.008	-0.371
hypoxia_3wks	-0.08	0.0
hypoxia_6wks	0.248	0.0
glycerol	0.693	0.0
cholesterol	-0.044	0.0
AJ	-0.284	0.0
Bibs02	-0.123	0.0
Bibs02c	-0.371	0.0
BL6	0.167	0.0
BL6a	-0.121	0.0
BXD01	-0.063	0.0
BXD010	-0.071	0.0
BXD011	0.565	0.0
BXD03	-0.179	0.0
BXD04	-0.352	0.0
BXD05	-0.008	0.0
BXD06	-0.044	0.0
BXD07	0.129	0.0
BXD08	0.239	0.0
BXD09	0.061	0.0
CAST	-0.509	0.0
CCcont	0.078	0.0
DS01	-0.159	0.0
DS02	-0.058	0.0
DS04	0.122	0.0
DS0c	-0.231	0.0
GP01	-0.162	0.0
GP02	0.523	0.0
GP0c	-0.155	0.0
NOD	-0.306	0.0
NZO	-0.292	0.0
PWK	0.108	0.0
H37Rv_KO_CtpC	-1.074	0.0
H37Rv_KO_CtpD	0.617	0.0
H37Rv_KO_Rv1272	-0.25	0.0
H37Rv_KO_SugABC	0.163	0.0
H37Rv_KO_MbtN	0.463	0.0
Trans05	-0.08	0.0
macrophage_unactivated	-0.221	0.0
IL1	-0.133	0.0
Rapamycin	-0.074	0.0
Tcell	-0.482	0.0
GMCSF	0.597	0.0
IFNab	-0.314	0.0
IFNg	-0.053	0.0
IFNg_GMCSF1	-0.723	0.0
Rv1432_day32	0.434	0.0
Rv1565c_day32	0.115	0.0
secA2_input	1.384	2.555
delta_Rv3594	0.268	0.0
delta_Rv3717	0.386	0.0
delta_Rv3811	-0.544	0.0
delta_Rv0954	-0.204	0.0
PonA1	0.694	0.56
EccD1_KO	-0.174	0.0
EspI_KO	0.85	0.0
PE35_KO	0.28	0.0
PPE68_KO	0.163	0.0
glycerol2	0.321	0.0
lignocerate	0.621	0.0
oleate	0.337	0.0
phosphatidylcholine	0.613	0.0
acetate	0.61	0.0
glucAc	0.507	0.0
Rv0950ko	0.89	0.0
Rv1096ko	-0.398	-0.416
Rv3684ko	0.599	0.413
delta_otsA_trehalose	-0.69	0.0