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 Rv3268/-:

update plot	correlation	link to info on gene
Rv0380c/-	(cc=0.5052)	info on Rv0380c/-
Rv2321c/rocD2	(cc=0.4822)	info on Rv2321c/rocD2
Rv3537/kstD	(cc=0.4808)	info on Rv3537/kstD
Rv3692/moxR2	(cc=0.4797)	info on Rv3692/moxR2
Rv0576/-	(cc=0.4553)	info on Rv0576/-
Rv3840/-	(cc=0.4472)	info on Rv3840/-
Rv3036c/TB22.2	(cc=0.4444)	info on Rv3036c/TB22.2
Rv1830/-	(cc=0.4412)	info on Rv1830/-
Rv0209/-	(cc=0.4411)	info on Rv0209/-
Rv1128c/-	(cc=0.4198)	info on Rv1128c/-

Correlation of Rv3268/- with Rv0380c/-

Normalized LFCs for Rv3268/-:
(description and provenance of datasets)

	Rv3268/-	Rv0380c/-
Fe_supp_jason_reseq	0.069	-0.688
low_pH_jason_reseq	-0.582	-0.42
NO_jason_reseq	-1.013	0.16
B6_jason_reseq	-1.626	-0.516
MHCII_jason_reseq	-1.818	-2.249
Isoniazid02	-1.058	-0.534
Rifampicin4	0.712	0.983
Ethambutol3	0.045	-0.111
Meropenem3	-0.502	-0.072
Vancomycin16	0.016	0.512
Rv2680_day32	-0.956	-1.968
H37Rv_KO_MarP	0.586	0.576
hypoxia_3wks	0.55	2.333
hypoxia_6wks	1.274	0.123
glycerol	-0.543	-1.934
cholesterol	-0.704	-0.904
AJ	0.055	-0.393
Bibs02	0.278	-0.976
Bibs02c	-0.918	-2.822
BL6	0.0	-0.467
BL6a	-0.242	-0.106
BXD01	0.219	0.0
BXD010	0.274	1.448
BXD011	0.076	0.495
BXD03	0.459	1.529
BXD04	0.568	0.705
BXD05	0.288	1.603
BXD06	0.785	0.895
BXD07	-0.132	0.768
BXD08	0.16	0.674
BXD09	0.395	0.962
CAST	-0.329	-0.946
CCcont	-0.037	0.379
DS01	0.084	-0.4
DS02	-0.296	-1.815
DS04	-0.134	-2.129
DS0c	-0.135	-0.058
GP01	1.864	-0.617
GP02	1.292	-0.744
GP0c	0.297	-0.105
NOD	-0.083	-1.403
NZO	-0.429	-1.153
PWK	-0.061	-1.637
H37Rv_KO_CtpC	-0.122	-0.275
H37Rv_KO_CtpD	-0.933	-1.39
H37Rv_KO_Rv1272	0.076	-0.526
H37Rv_KO_SugABC	-0.372	-0.885
H37Rv_KO_MbtN	0.21	-1.056
Trans05	0.402	-0.816
macrophage_unactivated	0.098	0.306
IL1	0.288	2.005
Rapamycin	0.939	0.298
Tcell	0.365	1.153
GMCSF	0.726	1.096
IFNab	0.889	0.671
IFNg	0.337	2.189
IFNg_GMCSF1	0.657	1.797
Rv1432_day32	-0.271	0.769
Rv1565c_day32	0.289	-1.106
secA2_input	0.429	0.725
delta_Rv3594	0.304	1.484
delta_Rv3717	0.481	1.221
delta_Rv3811	0.894	1.616
delta_Rv0954	0.243	0.149
PonA1	0.451	1.898
EccD1_KO	0.168	-1.519
EspI_KO	-1.155	-3.026
PE35_KO	0.128	-2.532
PPE68_KO	-0.739	-2.662
glycerol2	0.276	-0.856
lignocerate	-0.018	-0.794
oleate	0.359	-0.037
phosphatidylcholine	0.147	-0.545
acetate	-0.243	-1.084
glucAc	-0.327	-0.474
Rv0950ko	0.163	0.552
Rv1096ko	0.368	1.725
Rv3684ko	0.537	1.326
delta_otsA_trehalose	-1.794	0.111