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 Rv3300c/-

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

	Rv0223c/-	Rv3300c/-
Fe_supp_jason_reseq	-0.762	-0.766
low_pH_jason_reseq	0.095	-0.811
NO_jason_reseq	-0.457	-0.882
B6_jason_reseq	-0.284	-0.723
MHCII_jason_reseq	-0.521	-0.328
Isoniazid02	-0.288	-1.192
Rifampicin4	0.13	-1.124
Ethambutol3	-0.412	-1.131
Meropenem3	0.347	-0.907
Vancomycin16	-0.268	-1.366
Rv2680_day32	-0.554	1.906
H37Rv_KO_MarP	0.214	-0.317
hypoxia_3wks	-0.084	0.255
hypoxia_6wks	-0.111	-0.572
glycerol	-0.55	0.176
cholesterol	-1.008	-0.597
AJ	0.022	-0.108
Bibs02	0.78	-0.694
Bibs02c	-0.468	0.721
BL6	0.534	2.159
BL6a	-0.199	1.221
BXD01	0.506	2.32
BXD010	0.392	-0.09
BXD011	0.56	1.403
BXD03	0.354	0.817
BXD04	0.378	1.777
BXD05	0.846	1.252
BXD06	0.369	1.831
BXD07	0.718	2.284
BXD08	0.328	1.261
BXD09	0.449	1.581
CAST	0.424	0.43
CCcont	0.188	1.573
DS01	0.654	0.053
DS02	0.665	0.189
DS04	0.537	1.018
DS0c	0.237	-0.05
GP01	0.535	-0.069
GP02	0.646	0.936
GP0c	0.452	0.551
NOD	0.687	0.42
NZO	0.581	1.533
PWK	0.513	0.645
H37Rv_KO_CtpC	-0.59	0.479
H37Rv_KO_CtpD	-1.085	-0.807
H37Rv_KO_Rv1272	-0.611	0.0
H37Rv_KO_SugABC	1.184	0.52
H37Rv_KO_MbtN	-0.183	0.355
Trans05	-0.547	-0.225
macrophage_unactivated	-0.505	0.0
IL1	-0.475	-0.314
Rapamycin	0.028	0.23
Tcell	0.228	1.268
GMCSF	-0.475	-0.428
IFNab	-0.453	-0.532
IFNg	-0.591	-1.098
IFNg_GMCSF1	0.625	-0.836
Rv1432_day32	0.267	0.173
Rv1565c_day32	-0.36	-0.573
secA2_input	-0.041	-1.024
delta_Rv3594	0.219	-0.858
delta_Rv3717	0.4	-0.508
delta_Rv3811	-0.299	-0.732
delta_Rv0954	0.715	-0.39
PonA1	-0.472	-0.095
EccD1_KO	0.378	1.168
EspI_KO	0.95	1.646
PE35_KO	0.228	0.755
PPE68_KO	0.486	0.953
glycerol2	0.238	0.158
lignocerate	0.1	0.424
oleate	0.471	0.373
phosphatidylcholine	0.268	0.487
acetate	-0.02	-0.204
glucAc	-0.13	-0.069
Rv0950ko	0.41	-0.292
Rv1096ko	0.905	0.531
Rv3684ko	-0.491	1.729
delta_otsA_trehalose	0.503	-0.67