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 Rv0395/-

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

	Rv0885/-	Rv0395/-
Fe_supp_jason_reseq	0.428	-0.63
low_pH_jason_reseq	0.888	0.81
NO_jason_reseq	-0.249	0.326
B6_jason_reseq	-0.246	0.944
MHCII_jason_reseq	0.246	1.404
Isoniazid02	-0.492	-0.051
Rifampicin4	-1.002	-0.555
Ethambutol3	-0.681	-0.855
Meropenem3	-0.502	0.455
Vancomycin16	0.225	-0.414
Rv2680_day32	-0.073	0.366
H37Rv_KO_MarP	0.072	0.246
hypoxia_3wks	0.04	1.009
hypoxia_6wks	0.184	0.121
glycerol	-1.02	-2.722
cholesterol	0.396	-1.903
AJ	0.067	0.119
Bibs02	0.567	0.559
Bibs02c	-0.126	0.691
BL6	0.701	0.121
BL6a	0.6	0.276
BXD01	0.385	0.301
BXD010	1.024	-0.734
BXD011	0.449	0.0
BXD03	0.727	0.082
BXD04	0.528	-1.06
BXD05	1.058	-0.053
BXD06	0.171	0.158
BXD07	0.752	-0.412
BXD08	0.668	-0.032
BXD09	0.525	-0.171
CAST	0.132	-0.067
CCcont	0.657	-0.856
DS01	0.883	-0.034
DS02	1.341	0.274
DS04	0.815	0.457
DS0c	1.116	-1.037
GP01	-0.112	-1.749
GP02	0.578	0.091
GP0c	-1.007	-1.158
NOD	0.475	0.622
NZO	-0.407	0.192
PWK	-0.675	0.198
H37Rv_KO_CtpC	0.42	-0.155
H37Rv_KO_CtpD	0.129	-1.412
H37Rv_KO_Rv1272	-0.288	-1.496
H37Rv_KO_SugABC	0.658	-0.387
H37Rv_KO_MbtN	-0.606	-2.332
Trans05	0.784	0.436
macrophage_unactivated	-0.379	-0.341
IL1	0.475	0.225
Rapamycin	-0.193	-1.353
Tcell	-0.049	0.192
GMCSF	0.198	-0.092
IFNab	0.336	-0.647
IFNg	0.446	0.203
IFNg_GMCSF1	0.393	-0.427
Rv1432_day32	-0.402	2.241
Rv1565c_day32	0.265	0.49
secA2_input	0.302	0.831
delta_Rv3594	-0.023	1.152
delta_Rv3717	-0.346	0.415
delta_Rv3811	-0.489	0.232
delta_Rv0954	0.611	1.644
PonA1	1.442	0.201
EccD1_KO	0.944	0.898
EspI_KO	0.733	-0.83
PE35_KO	-0.295	-0.038
PPE68_KO	0.339	0.08
glycerol2	-0.835	-1.607
lignocerate	-1.794	-1.677
oleate	-0.491	-1.007
phosphatidylcholine	-0.485	-1.542
acetate	-2.449	-3.157
glucAc	-1.323	-1.405
Rv0950ko	0.033	-0.133
Rv1096ko	0.648	0.691
Rv3684ko	-0.183	-0.557
delta_otsA_trehalose	0.522	-0.286