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 Rv0373c/-:

update plot	correlation	link to info on gene
Rv0338c/-	(cc=0.7289)	info on Rv0338c/-
Rv2268c/cyp128	(cc=0.6421)	info on Rv2268c/cyp128
Rv1371/-	(cc=0.6126)	info on Rv1371/-
Rv1675c/cmr	(cc=0.5903)	info on Rv1675c/cmr
Rv0669c/-	(cc=0.5499)	info on Rv0669c/-
Rv0320/-	(cc=0.5155)	info on Rv0320/-
Rv1097c/-	(cc=0.4781)	info on Rv1097c/-
Rv2715/-	(cc=0.4709)	info on Rv2715/-
Rv1360/-	(cc=0.4694)	info on Rv1360/-
Rv2090/-	(cc=0.4681)	info on Rv2090/-

Correlation of Rv0373c/- with Rv0338c/-

Normalized LFCs for Rv0373c/-:
(description and provenance of datasets)

	Rv0373c/-	Rv0338c/-
Fe_supp_jason_reseq	-0.676	0.0
low_pH_jason_reseq	0.775	0.0
NO_jason_reseq	0.656	0.0
B6_jason_reseq	-0.535	0.0
MHCII_jason_reseq	-0.119	0.0
Isoniazid02	-0.31	0.0
Rifampicin4	-0.276	0.0
Ethambutol3	-0.231	0.0
Meropenem3	1.324	0.0
Vancomycin16	-0.162	0.0
Rv2680_day32	0.836	0.0
H37Rv_KO_MarP	-0.059	0.0
hypoxia_3wks	0.307	0.0
hypoxia_6wks	-0.054	0.0
glycerol	0.391	0.385
cholesterol	5.178	3.545
AJ	-0.261	0.0
Bibs02	0.126	0.0
Bibs02c	0.611	0.0
BL6	0.106	0.0
BL6a	0.0	0.0
BXD01	0.213	0.0
BXD010	0.651	0.0
BXD011	0.319	0.0
BXD03	-0.352	0.0
BXD04	-0.163	0.0
BXD05	0.714	0.0
BXD06	-0.098	0.0
BXD07	-0.269	0.0
BXD08	-0.149	0.0
BXD09	-0.158	0.0
CAST	0.195	0.0
CCcont	0.151	0.0
DS01	-0.086	0.0
DS02	-0.039	0.0
DS04	0.067	0.0
DS0c	0.633	0.0
GP01	0.017	0.0
GP02	1.31	0.0
GP0c	0.543	0.0
NOD	0.19	0.0
NZO	0.069	0.0
PWK	0.82	0.0
H37Rv_KO_CtpC	-0.577	0.0
H37Rv_KO_CtpD	0.559	0.0
H37Rv_KO_Rv1272	0.252	0.0
H37Rv_KO_SugABC	0.471	0.0
H37Rv_KO_MbtN	-0.502	0.0
Trans05	0.515	0.0
macrophage_unactivated	0.357	0.0
IL1	-0.27	0.0
Rapamycin	0.512	0.0
Tcell	-0.196	0.0
GMCSF	0.298	0.0
IFNab	0.175	0.0
IFNg	0.446	0.0
IFNg_GMCSF1	-0.386	0.0
Rv1432_day32	-0.505	0.0
Rv1565c_day32	0.58	0.0
secA2_input	-0.348	0.847
delta_Rv3594	0.567	0.0
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	-0.168	0.0
PonA1	-0.422	0.0
EccD1_KO	-0.253	0.0
EspI_KO	-0.451	0.0
PE35_KO	-0.648	0.0
PPE68_KO	-0.573	0.0
glycerol2	-0.171	0.0
lignocerate	-0.149	0.0
oleate	-0.085	0.0
phosphatidylcholine	-0.028	0.0
acetate	0.304	0.0
glucAc	0.059	0.0
Rv0950ko	-0.338	0.0
Rv1096ko	0.374	0.0
Rv3684ko	0.468	0.0
delta_otsA_trehalose	-1.609	0.133