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 Rv1908c/katG:

update plot	correlation	link to info on gene
Rv2259/mscR	(cc=0.6783)	info on Rv2259/mscR
Rv3715c/recR	(cc=0.6779)	info on Rv3715c/recR
Rv1420/uvrC	(cc=0.6662)	info on Rv1420/uvrC
Rv1633/uvrB	(cc=0.663)	info on Rv1633/uvrB
Rv1173/fbiC	(cc=0.628)	info on Rv1173/fbiC
Rv1701/-	(cc=0.618)	info on Rv1701/-
Rv2198c/mmpS3	(cc=0.6134)	info on Rv2198c/mmpS3
Rv1638/uvrA	(cc=0.6103)	info on Rv1638/uvrA
Rv2373c/dnaJ2	(cc=0.5982)	info on Rv2373c/dnaJ2
Rv3624c/hpt	(cc=0.5969)	info on Rv3624c/hpt

Correlation of Rv1908c/katG with Rv2373c/dnaJ2

Normalized LFCs for Rv1908c/katG:
(description and provenance of datasets)

	Rv1908c/katG	Rv2373c/dnaJ2
Fe_supp_jason_reseq	2.303	0.0
low_pH_jason_reseq	-0.44	0.0
NO_jason_reseq	-0.69	0.0
B6_jason_reseq	-0.292	0.0
MHCII_jason_reseq	-0.257	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.0	0.0
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.722	0.0
hypoxia_3wks	-0.977	0.0
hypoxia_6wks	-2.714	0.0
glycerol	0.0	0.0
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.238	0.0
BL6a	0.544	0.0
BXD01	0.248	0.0
BXD010	0.0	0.0
BXD011	0.854	0.0
BXD03	0.0	0.0
BXD04	0.34	0.0
BXD05	0.661	0.0
BXD06	0.469	0.0
BXD07	0.0	0.0
BXD08	0.365	0.0
BXD09	0.69	0.0
CAST	0.0	0.0
CCcont	3.165	0.525
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.953	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.446	0.0
H37Rv_KO_CtpD	0.703	0.0
H37Rv_KO_Rv1272	0.141	0.0
H37Rv_KO_SugABC	0.42	0.0
H37Rv_KO_MbtN	2.414	0.0
Trans05	0.359	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.417	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-0.494	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.67	-0.136
delta_Rv3594	0.907	0.0
delta_Rv3717	0.784	0.0
delta_Rv3811	0.812	0.0
delta_Rv0954	0.842	0.0
PonA1	-0.419	0.0
EccD1_KO	-4.969	-1.924
EspI_KO	-4.743	-1.668
PE35_KO	1.374	-1.304
PPE68_KO	0.275	-1.43
glycerol2	-3.698	-0.95
lignocerate	-2.548	-0.826
oleate	-3.077	-0.961
phosphatidylcholine	-3.546	-0.95
acetate	0.253	0.652
glucAc	-0.375	1.328
Rv0950ko	-1.212	0.0
Rv1096ko	-1.493	0.0
Rv3684ko	-0.298	0.0
delta_otsA_trehalose	0.153	-0.103