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 Rv1830/-

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

	Rv3268/-	Rv1830/-
Fe_supp_jason_reseq	0.069	-1.285
low_pH_jason_reseq	-0.582	-2.453
NO_jason_reseq	-1.013	-0.562
B6_jason_reseq	-1.626	-2.814
MHCII_jason_reseq	-1.818	-2.478
Isoniazid02	-1.058	-0.221
Rifampicin4	0.712	1.172
Ethambutol3	0.045	2.094
Meropenem3	-0.502	0.519
Vancomycin16	0.016	0.0
Rv2680_day32	-0.956	0.0
H37Rv_KO_MarP	0.586	-1.527
hypoxia_3wks	0.55	0.0
hypoxia_6wks	1.274	0.0
glycerol	-0.543	0.554
cholesterol	-0.704	0.0
AJ	0.055	0.0
Bibs02	0.278	0.0
Bibs02c	-0.918	0.0
BL6	0.0	0.0
BL6a	-0.242	0.198
BXD01	0.219	0.0
BXD010	0.274	0.0
BXD011	0.076	0.243
BXD03	0.459	0.0
BXD04	0.568	0.0
BXD05	0.288	0.135
BXD06	0.785	0.0
BXD07	-0.132	0.0
BXD08	0.16	0.0
BXD09	0.395	0.0
CAST	-0.329	0.0
CCcont	-0.037	0.525
DS01	0.084	0.0
DS02	-0.296	0.0
DS04	-0.134	0.0
DS0c	-0.135	0.0
GP01	1.864	0.662
GP02	1.292	0.159
GP0c	0.297	1.663
NOD	-0.083	0.0
NZO	-0.429	0.0
PWK	-0.061	0.196
H37Rv_KO_CtpC	-0.122	0.901
H37Rv_KO_CtpD	-0.933	0.127
H37Rv_KO_Rv1272	0.076	2.25
H37Rv_KO_SugABC	-0.372	0.0
H37Rv_KO_MbtN	0.21	0.897
Trans05	0.402	2.024
macrophage_unactivated	0.098	0.436
IL1	0.288	0.0
Rapamycin	0.939	0.0
Tcell	0.365	0.0
GMCSF	0.726	0.0
IFNab	0.889	0.0
IFNg	0.337	0.0
IFNg_GMCSF1	0.657	0.0
Rv1432_day32	-0.271	0.0
Rv1565c_day32	0.289	0.0
secA2_input	0.429	0.167
delta_Rv3594	0.304	0.369
delta_Rv3717	0.481	1.055
delta_Rv3811	0.894	1.732
delta_Rv0954	0.243	-1.349
PonA1	0.451	-0.675
EccD1_KO	0.168	0.0
EspI_KO	-1.155	-1.56
PE35_KO	0.128	-0.995
PPE68_KO	-0.739	-1.411
glycerol2	0.276	0.369
lignocerate	-0.018	0.168
oleate	0.359	0.0
phosphatidylcholine	0.147	0.193
acetate	-0.243	0.229
glucAc	-0.327	0.605
Rv0950ko	0.163	-0.172
Rv1096ko	0.368	1.294
Rv3684ko	0.537	-0.187
delta_otsA_trehalose	-1.794	-0.965