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 Rv0223c/-:

update plot	correlation	link to info on gene
Rv3147/nuoC	(cc=0.4701)	info on Rv3147/nuoC
Rv3406/-	(cc=0.4124)	info on Rv3406/-
Rv3300c/-	(cc=0.4051)	info on Rv3300c/-
Rv3143/-	(cc=0.4032)	info on Rv3143/-
Rv3504/fadE26	(cc=0.4003)	info on Rv3504/fadE26
Rv1216c/-	(cc=0.3952)	info on Rv1216c/-
Rv3184/-	(cc=0.3945)	info on Rv3184/-
Rv0771/-	(cc=0.3902)	info on Rv0771/-
Rv0672/fadE8	(cc=0.3781)	info on Rv0672/fadE8
Rv2963/-	(cc=0.3776)	info on Rv2963/-

Correlation of Rv0223c/- with Rv3406/-

Normalized LFCs for Rv0223c/-:
(description and provenance of datasets)

	Rv0223c/-	Rv3406/-
Fe_supp_jason_reseq	-0.762	-0.343
low_pH_jason_reseq	0.095	-0.477
NO_jason_reseq	-0.457	-0.347
B6_jason_reseq	-0.284	-0.298
MHCII_jason_reseq	-0.521	0.298
Isoniazid02	-0.288	-1.986
Rifampicin4	0.13	0.368
Ethambutol3	-0.412	-1.893
Meropenem3	0.347	-0.167
Vancomycin16	-0.268	-0.748
Rv2680_day32	-0.554	-0.062
H37Rv_KO_MarP	0.214	0.524
hypoxia_3wks	-0.084	-0.032
hypoxia_6wks	-0.111	-0.386
glycerol	-0.55	0.023
cholesterol	-1.008	-0.246
AJ	0.022	0.531
Bibs02	0.78	0.201
Bibs02c	-0.468	-0.662
BL6	0.534	1.034
BL6a	-0.199	0.145
BXD01	0.506	-0.008
BXD010	0.392	0.811
BXD011	0.56	0.153
BXD03	0.354	-0.158
BXD04	0.378	0.425
BXD05	0.846	0.565
BXD06	0.369	0.274
BXD07	0.718	0.336
BXD08	0.328	0.023
BXD09	0.449	0.494
CAST	0.424	0.46
CCcont	0.188	0.043
DS01	0.654	0.31
DS02	0.665	-0.05
DS04	0.537	0.077
DS0c	0.237	-0.239
GP01	0.535	0.288
GP02	0.646	1.221
GP0c	0.452	-0.528
NOD	0.687	0.809
NZO	0.581	-0.194
PWK	0.513	0.512
H37Rv_KO_CtpC	-0.59	-0.067
H37Rv_KO_CtpD	-1.085	0.795
H37Rv_KO_Rv1272	-0.611	-0.911
H37Rv_KO_SugABC	1.184	0.155
H37Rv_KO_MbtN	-0.183	-0.211
Trans05	-0.547	-0.565
macrophage_unactivated	-0.505	-0.331
IL1	-0.475	0.039
Rapamycin	0.028	-0.04
Tcell	0.228	0.124
GMCSF	-0.475	0.195
IFNab	-0.453	-0.218
IFNg	-0.591	0.449
IFNg_GMCSF1	0.625	0.251
Rv1432_day32	0.267	0.252
Rv1565c_day32	-0.36	-0.24
secA2_input	-0.041	-0.016
delta_Rv3594	0.219	-0.465
delta_Rv3717	0.4	-0.262
delta_Rv3811	-0.299	-0.149
delta_Rv0954	0.715	0.419
PonA1	-0.472	0.259
EccD1_KO	0.378	0.691
EspI_KO	0.95	0.046
PE35_KO	0.228	-0.047
PPE68_KO	0.486	-0.211
glycerol2	0.238	0.553
lignocerate	0.1	0.225
oleate	0.471	0.527
phosphatidylcholine	0.268	0.5
acetate	-0.02	0.219
glucAc	-0.13	0.06
Rv0950ko	0.41	0.573
Rv1096ko	0.905	0.694
Rv3684ko	-0.491	0.151
delta_otsA_trehalose	0.503	1.329