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 Rv2798c/-:

update plot	correlation	link to info on gene
Rv2697c/dut	(cc=0.425)	info on Rv2697c/dut
Rv2164c/-	(cc=0.4063)	info on Rv2164c/-
Rv0421c/-	(cc=0.3914)	info on Rv0421c/-
Rv3086/adhD	(cc=0.3798)	info on Rv3086/adhD
Rv1341/-	(cc=0.3735)	info on Rv1341/-
Rv1049/-	(cc=0.3714)	info on Rv1049/-
Rv3807c/-	(cc=0.3687)	info on Rv3807c/-
Rv0841/-	(cc=0.3674)	info on Rv0841/-
Rv0105c/rpmB1	(cc=0.3624)	info on Rv0105c/rpmB1
Rv3002c/ilvN	(cc=0.3438)	info on Rv3002c/ilvN

Correlation of Rv2798c/- with Rv2697c/dut

Normalized LFCs for Rv2798c/-:
(description and provenance of datasets)

	Rv2798c/-	Rv2697c/dut
Fe_supp_jason_reseq	2.167	0.766
low_pH_jason_reseq	-0.432	0.0
NO_jason_reseq	2.058	0.0
B6_jason_reseq	1.408	0.0
MHCII_jason_reseq	0.4	0.0
Isoniazid02	-0.285	0.0
Rifampicin4	1.348	0.0
Ethambutol3	-0.028	0.0
Meropenem3	0.558	0.0
Vancomycin16	0.963	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.357	0.0
hypoxia_3wks	1.228	0.0
hypoxia_6wks	1.086	0.0
glycerol	-0.847	0.0
cholesterol	-0.281	0.0
AJ	0.272	0.0
Bibs02	1.631	0.0
Bibs02c	-2.922	0.0
BL6	0.214	0.0
BL6a	0.069	0.0
BXD01	-0.339	0.0
BXD010	0.803	0.0
BXD011	-0.658	0.0
BXD03	0.059	0.0
BXD04	0.174	0.0
BXD05	-0.036	0.0
BXD06	-0.024	0.0
BXD07	0.44	0.0
BXD08	1.038	0.133
BXD09	0.986	0.0
CAST	0.04	0.0
CCcont	0.289	0.0
DS01	-0.696	0.0
DS02	0.677	0.0
DS04	1.389	0.0
DS0c	-0.352	0.0
GP01	1.719	0.0
GP02	-0.255	0.0
GP0c	0.536	0.0
NOD	-0.688	0.0
NZO	-0.345	0.0
PWK	-0.239	0.0
H37Rv_KO_CtpC	-1.563	0.0
H37Rv_KO_CtpD	1.476	0.0
H37Rv_KO_Rv1272	-1.67	0.0
H37Rv_KO_SugABC	-1.258	0.0
H37Rv_KO_MbtN	-1.221	0.0
Trans05	-2.817	0.0
macrophage_unactivated	0.786	0.0
IL1	0.024	0.0
Rapamycin	-0.614	0.0
Tcell	-0.88	0.0
GMCSF	-1.555	0.0
IFNab	0.463	0.0
IFNg	-1.155	0.0
IFNg_GMCSF1	1.505	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.533	0.116
delta_Rv3594	2.097	1.53
delta_Rv3717	1.124	2.079
delta_Rv3811	2.167	0.97
delta_Rv0954	-1.799	-0.627
PonA1	0.958	-0.123
EccD1_KO	1.023	0.73
EspI_KO	-2.424	-0.75
PE35_KO	-1.324	-0.767
PPE68_KO	-1.097	-0.841
glycerol2	-0.503	0.0
lignocerate	0.49	0.0
oleate	-0.737	0.0
phosphatidylcholine	0.091	0.0
acetate	-0.045	0.0
glucAc	0.812	0.0
Rv0950ko	0.691	0.0
Rv1096ko	-0.995	0.0
Rv3684ko	-0.206	0.861
delta_otsA_trehalose	1.686	0.0