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 Rv0885/-:

update plot	correlation	link to info on gene
Rv2290/lppO	(cc=0.5668)	info on Rv2290/lppO
Rv1365c/rsfA	(cc=0.5363)	info on Rv1365c/rsfA
Rv0526/-	(cc=0.5171)	info on Rv0526/-
Rv0892/-	(cc=0.4887)	info on Rv0892/-
Rv1709/scpA	(cc=0.4681)	info on Rv1709/scpA
Rv2537c/aroD	(cc=0.468)	info on Rv2537c/aroD
Rv1346/mbtN	(cc=0.4615)	info on Rv1346/mbtN
Rv0395/-	(cc=0.4489)	info on Rv0395/-
Rv1312/-	(cc=0.4398)	info on Rv1312/-
Rv2922c/smc	(cc=0.4188)	info on Rv2922c/smc

Correlation of Rv0885/- with Rv0526/-

Normalized LFCs for Rv0885/-:
(description and provenance of datasets)

	Rv0885/-	Rv0526/-
Fe_supp_jason_reseq	0.428	0.0
low_pH_jason_reseq	0.888	0.0
NO_jason_reseq	-0.249	0.0
B6_jason_reseq	-0.246	0.0
MHCII_jason_reseq	0.246	0.0
Isoniazid02	-0.492	0.0
Rifampicin4	-1.002	0.0
Ethambutol3	-0.681	0.0
Meropenem3	-0.502	0.0
Vancomycin16	0.225	0.0
Rv2680_day32	-0.073	0.0
H37Rv_KO_MarP	0.072	0.0
hypoxia_3wks	0.04	0.0
hypoxia_6wks	0.184	0.0
glycerol	-1.02	0.0
cholesterol	0.396	0.0
AJ	0.067	0.0
Bibs02	0.567	0.0
Bibs02c	-0.126	0.0
BL6	0.701	0.0
BL6a	0.6	0.0
BXD01	0.385	0.0
BXD010	1.024	0.0
BXD011	0.449	0.0
BXD03	0.727	0.0
BXD04	0.528	0.0
BXD05	1.058	0.0
BXD06	0.171	0.0
BXD07	0.752	0.0
BXD08	0.668	0.0
BXD09	0.525	0.0
CAST	0.132	0.0
CCcont	0.657	0.0
DS01	0.883	0.0
DS02	1.341	0.0
DS04	0.815	0.0
DS0c	1.116	0.0
GP01	-0.112	0.0
GP02	0.578	0.0
GP0c	-1.007	0.0
NOD	0.475	0.0
NZO	-0.407	0.0
PWK	-0.675	0.0
H37Rv_KO_CtpC	0.42	0.0
H37Rv_KO_CtpD	0.129	0.0
H37Rv_KO_Rv1272	-0.288	0.0
H37Rv_KO_SugABC	0.658	0.0
H37Rv_KO_MbtN	-0.606	0.0
Trans05	0.784	0.0
macrophage_unactivated	-0.379	0.0
IL1	0.475	0.0
Rapamycin	-0.193	0.0
Tcell	-0.049	0.0
GMCSF	0.198	0.0
IFNab	0.336	0.0
IFNg	0.446	0.0
IFNg_GMCSF1	0.393	0.0
Rv1432_day32	-0.402	0.0
Rv1565c_day32	0.265	0.0
secA2_input	0.302	-0.412
delta_Rv3594	-0.023	0.0
delta_Rv3717	-0.346	0.0
delta_Rv3811	-0.489	0.205
delta_Rv0954	0.611	0.0
PonA1	1.442	0.0
EccD1_KO	0.944	0.0
EspI_KO	0.733	0.0
PE35_KO	-0.295	0.767
PPE68_KO	0.339	0.442
glycerol2	-0.835	-1.499
lignocerate	-1.794	-1.303
oleate	-0.491	-1.517
phosphatidylcholine	-0.485	-1.499
acetate	-2.449	-1.779
glucAc	-1.323	-1.106
Rv0950ko	0.033	0.416
Rv1096ko	0.648	0.0
Rv3684ko	-0.183	0.0
delta_otsA_trehalose	0.522	0.0