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 Rv1347c/mbtK:

update plot	correlation	link to info on gene
Rv3849/espR	(cc=0.5904)	info on Rv3849/espR
Rv2475c/-	(cc=0.5205)	info on Rv2475c/-
Rv0391/metZ	(cc=0.5149)	info on Rv0391/metZ
Rv3534c/hsaF	(cc=0.4959)	info on Rv3534c/hsaF
Rv0757/phoP	(cc=0.4908)	info on Rv0757/phoP
Rv2476c/gdh	(cc=0.4894)	info on Rv2476c/gdh
Rv2594c/ruvC	(cc=0.481)	info on Rv2594c/ruvC
Rv3197/-	(cc=0.4778)	info on Rv3197/-
Rv1331/-	(cc=0.4764)	info on Rv1331/-
Rv2386c/mbtI	(cc=0.4756)	info on Rv2386c/mbtI

Correlation of Rv1347c/mbtK with Rv2594c/ruvC

Normalized LFCs for Rv1347c/mbtK:
(description and provenance of datasets)

	Rv1347c/mbtK	Rv2594c/ruvC
Fe_supp_jason_reseq	0.854	0.218
low_pH_jason_reseq	0.905	0.0
NO_jason_reseq	-0.362	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	0.268	-0.351
Rifampicin4	-0.893	-1.026
Ethambutol3	-1.569	-0.461
Meropenem3	-1.452	-0.289
Vancomycin16	-0.088	-1.005
Rv2680_day32	-0.512	0.0
H37Rv_KO_MarP	0.735	0.0
hypoxia_3wks	-0.502	0.0
hypoxia_6wks	-0.263	0.0
glycerol	-0.709	0.0
cholesterol	-0.509	0.0
AJ	-0.815	0.0
Bibs02	-0.642	0.0
Bibs02c	-0.527	0.0
BL6	-0.439	0.0
BL6a	-0.696	0.0
BXD01	-0.458	0.0
BXD010	-0.45	0.0
BXD011	-0.448	0.0
BXD03	-0.475	0.0
BXD04	-0.434	0.0
BXD05	-0.473	0.0
BXD06	-0.469	0.0
BXD07	-0.486	0.0
BXD08	-0.467	0.0
BXD09	-0.494	0.0
CAST	-0.809	0.0
CCcont	0.303	0.733
DS01	-0.38	0.0
DS02	0.0	0.0
DS04	-0.489	0.0
DS0c	-0.168	0.0
GP01	-0.347	0.0
GP02	-0.292	0.0
GP0c	-0.457	0.0
NOD	-0.566	0.0
NZO	-0.701	0.0
PWK	-0.494	0.0
H37Rv_KO_CtpC	-0.41	0.0
H37Rv_KO_CtpD	-0.204	0.0
H37Rv_KO_Rv1272	-0.495	0.0
H37Rv_KO_SugABC	-0.348	0.0
H37Rv_KO_MbtN	-0.26	0.0
Trans05	-0.459	0.0
macrophage_unactivated	0.83	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	1.235	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.092	0.412
delta_Rv3594	-0.635	0.211
delta_Rv3717	0.0	0.0
delta_Rv3811	-0.287	0.0
delta_Rv0954	-0.536	0.99
PonA1	1.35	0.304
EccD1_KO	-0.664	0.0
EspI_KO	0.659	-0.394
PE35_KO	0.674	0.703
PPE68_KO	0.384	0.0
glycerol2	-0.177	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	1.225	0.63
glucAc	0.0	0.0
Rv0950ko	0.639	0.38
Rv1096ko	0.639	0.38
Rv3684ko	1.104	0.789
delta_otsA_trehalose	1.515	1.482