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 Rv1128c/-

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

	Rv3268/-	Rv1128c/-
Fe_supp_jason_reseq	0.069	1.403
low_pH_jason_reseq	-0.582	0.254
NO_jason_reseq	-1.013	-1.137
B6_jason_reseq	-1.626	-0.403
MHCII_jason_reseq	-1.818	-0.355
Isoniazid02	-1.058	0.175
Rifampicin4	0.712	0.325
Ethambutol3	0.045	0.074
Meropenem3	-0.502	0.4
Vancomycin16	0.016	0.753
Rv2680_day32	-0.956	0.715
H37Rv_KO_MarP	0.586	0.467
hypoxia_3wks	0.55	0.371
hypoxia_6wks	1.274	0.0
glycerol	-0.543	-0.168
cholesterol	-0.704	-0.475
AJ	0.055	0.578
Bibs02	0.278	-0.234
Bibs02c	-0.918	-0.805
BL6	0.0	0.312
BL6a	-0.242	0.364
BXD01	0.219	0.994
BXD010	0.274	0.435
BXD011	0.076	0.396
BXD03	0.459	0.053
BXD04	0.568	1.334
BXD05	0.288	0.675
BXD06	0.785	0.566
BXD07	-0.132	1.608
BXD08	0.16	1.091
BXD09	0.395	0.838
CAST	-0.329	-0.192
CCcont	-0.037	0.592
DS01	0.084	0.589
DS02	-0.296	-0.279
DS04	-0.134	0.659
DS0c	-0.135	0.0
GP01	1.864	0.961
GP02	1.292	0.064
GP0c	0.297	1.224
NOD	-0.083	-0.093
NZO	-0.429	0.433
PWK	-0.061	0.489
H37Rv_KO_CtpC	-0.122	1.005
H37Rv_KO_CtpD	-0.933	1.504
H37Rv_KO_Rv1272	0.076	1.373
H37Rv_KO_SugABC	-0.372	-0.127
H37Rv_KO_MbtN	0.21	0.936
Trans05	0.402	1.784
macrophage_unactivated	0.098	2.235
IL1	0.288	0.658
Rapamycin	0.939	2.081
Tcell	0.365	1.235
GMCSF	0.726	1.869
IFNab	0.889	1.769
IFNg	0.337	0.911
IFNg_GMCSF1	0.657	0.952
Rv1432_day32	-0.271	-0.439
Rv1565c_day32	0.289	-0.196
secA2_input	0.429	0.839
delta_Rv3594	0.304	0.867
delta_Rv3717	0.481	-0.068
delta_Rv3811	0.894	0.226
delta_Rv0954	0.243	-0.655
PonA1	0.451	-0.34
EccD1_KO	0.168	-0.753
EspI_KO	-1.155	-0.248
PE35_KO	0.128	-0.388
PPE68_KO	-0.739	-0.278
glycerol2	0.276	-0.053
lignocerate	-0.018	-0.095
oleate	0.359	0.052
phosphatidylcholine	0.147	-0.053
acetate	-0.243	-0.607
glucAc	-0.327	-1.073
Rv0950ko	0.163	-0.546
Rv1096ko	0.368	0.814
Rv3684ko	0.537	0.648
delta_otsA_trehalose	-1.794	-0.965