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 Rv2516c/-:

update plot	correlation	link to info on gene
Rv1512/epiA	(cc=0.6223)	info on Rv1512/epiA
Rv1908c/katG	(cc=0.5588)	info on Rv1908c/katG
Rv2224c/caeA	(cc=0.5513)	info on Rv2224c/caeA
Rv1701/-	(cc=0.5484)	info on Rv1701/-
Rv3025c/iscS	(cc=0.5438)	info on Rv3025c/iscS
Rv2373c/dnaJ2	(cc=0.5198)	info on Rv2373c/dnaJ2
Rv3715c/recR	(cc=0.519)	info on Rv3715c/recR
Rv2594c/ruvC	(cc=0.518)	info on Rv2594c/ruvC
Rv0007/-	(cc=0.5076)	info on Rv0007/-
Rv2869c/rip	(cc=0.4977)	info on Rv2869c/rip

Correlation of Rv2516c/- with Rv3025c/iscS

Normalized LFCs for Rv2516c/-:
(description and provenance of datasets)

	Rv2516c/-	Rv3025c/iscS
Fe_supp_jason_reseq	0.991	0.766
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	-0.362	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.551	0.0
Rifampicin4	-2.708	0.0
Ethambutol3	-0.851	0.0
Meropenem3	-1.336	0.0
Vancomycin16	-0.639	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.92	-0.371
hypoxia_3wks	-1.132	0.0
hypoxia_6wks	-1.167	0.0
glycerol	0.0	0.0
cholesterol	-0.145	0.0
AJ	-0.232	0.0
Bibs02	-0.183	0.0
Bibs02c	-0.209	0.0
BL6	-0.125	0.0
BL6a	-0.198	0.0
BXD01	-0.13	0.0
BXD010	0.323	0.0
BXD011	-0.127	0.0
BXD03	-0.135	0.0
BXD04	-0.124	0.0
BXD05	0.235	0.0
BXD06	-0.133	0.0
BXD07	-0.138	0.0
BXD08	-0.133	0.0
BXD09	-0.14	0.0
CAST	-0.23	0.0
CCcont	2.595	0.149
DS01	0.0	0.0
DS02	-0.217	0.0
DS04	-0.194	0.0
DS0c	-0.217	0.0
GP01	-0.099	0.0
GP02	-0.083	0.083
GP0c	-0.13	0.0
NOD	-0.225	0.0
NZO	-0.199	0.0
PWK	-0.196	0.0
H37Rv_KO_CtpC	-0.162	0.0
H37Rv_KO_CtpD	-0.127	0.0
H37Rv_KO_Rv1272	-0.141	0.0
H37Rv_KO_SugABC	-0.099	0.0
H37Rv_KO_MbtN	-0.103	0.0
Trans05	-0.131	0.0
macrophage_unactivated	-1.146	0.0
IL1	-0.685	0.0
Rapamycin	-0.709	0.0
Tcell	-1.906	0.0
GMCSF	0.0	0.0
IFNab	0.741	0.0
IFNg	0.275	0.0
IFNg_GMCSF1	-0.726	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.504	0.916
delta_Rv3594	0.895	0.193
delta_Rv3717	0.736	0.159
delta_Rv3811	1.328	0.187
delta_Rv0954	1.541	0.0
PonA1	-0.56	-0.159
EccD1_KO	-2.611	-1.246
EspI_KO	-1.748	-1.081
PE35_KO	-0.898	0.0
PPE68_KO	-0.771	-0.771
glycerol2	-1.113	-0.369
lignocerate	-0.746	-0.32
oleate	-1.955	-0.373
phosphatidylcholine	-0.859	-0.368
acetate	0.422	-0.437
glucAc	0.526	-0.272
Rv0950ko	0.669	1.894
Rv1096ko	2.075	1.05
Rv3684ko	0.498	0.413
delta_otsA_trehalose	0.254	-0.133