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 Rv0672/fadE8

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

	Rv0223c/-	Rv0672/fadE8
Fe_supp_jason_reseq	-0.762	-0.06
low_pH_jason_reseq	0.095	-0.512
NO_jason_reseq	-0.457	0.58
B6_jason_reseq	-0.284	-0.085
MHCII_jason_reseq	-0.521	0.257
Isoniazid02	-0.288	-0.911
Rifampicin4	0.13	0.33
Ethambutol3	-0.412	-0.091
Meropenem3	0.347	-0.212
Vancomycin16	-0.268	-0.371
Rv2680_day32	-0.554	0.448
H37Rv_KO_MarP	0.214	0.188
hypoxia_3wks	-0.084	0.0
hypoxia_6wks	-0.111	0.144
glycerol	-0.55	-0.847
cholesterol	-1.008	0.253
AJ	0.022	-0.413
Bibs02	0.78	0.51
Bibs02c	-0.468	-0.417
BL6	0.534	0.227
BL6a	-0.199	0.017
BXD01	0.506	0.283
BXD010	0.392	0.391
BXD011	0.56	0.397
BXD03	0.354	0.024
BXD04	0.378	1.103
BXD05	0.846	0.0
BXD06	0.369	0.424
BXD07	0.718	0.591
BXD08	0.328	0.431
BXD09	0.449	0.5
CAST	0.424	0.334
CCcont	0.188	0.136
DS01	0.654	-0.021
DS02	0.665	0.348
DS04	0.537	0.462
DS0c	0.237	0.676
GP01	0.535	0.18
GP02	0.646	1.699
GP0c	0.452	0.486
NOD	0.687	-0.161
NZO	0.581	-0.377
PWK	0.513	0.328
H37Rv_KO_CtpC	-0.59	-0.411
H37Rv_KO_CtpD	-1.085	-0.687
H37Rv_KO_Rv1272	-0.611	-0.357
H37Rv_KO_SugABC	1.184	1.214
H37Rv_KO_MbtN	-0.183	1.119
Trans05	-0.547	0.364
macrophage_unactivated	-0.505	-0.268
IL1	-0.475	0.409
Rapamycin	0.028	-0.064
Tcell	0.228	-0.068
GMCSF	-0.475	-0.253
IFNab	-0.453	-0.357
IFNg	-0.591	0.369
IFNg_GMCSF1	0.625	0.578
Rv1432_day32	0.267	0.771
Rv1565c_day32	-0.36	0.524
secA2_input	-0.041	-0.409
delta_Rv3594	0.219	0.462
delta_Rv3717	0.4	0.206
delta_Rv3811	-0.299	0.464
delta_Rv0954	0.715	-0.049
PonA1	-0.472	0.111
EccD1_KO	0.378	-0.062
EspI_KO	0.95	-0.228
PE35_KO	0.228	-0.055
PPE68_KO	0.486	0.122
glycerol2	0.238	1.159
lignocerate	0.1	0.828
oleate	0.471	1.293
phosphatidylcholine	0.268	0.48
acetate	-0.02	0.025
glucAc	-0.13	0.063
Rv0950ko	0.41	0.675
Rv1096ko	0.905	1.074
Rv3684ko	-0.491	0.986
delta_otsA_trehalose	0.503	1.295