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 Rv2245/kasA:

update plot	correlation	link to info on gene
Rv2785c/rpsO	(cc=0.4836)	info on Rv2785c/rpsO
Rv2838c/rbfA	(cc=0.4713)	info on Rv2838c/rbfA
Rv1512/epiA	(cc=0.4661)	info on Rv1512/epiA
Rv0123/-	(cc=0.4507)	info on Rv0123/-
Rv2592c/ruvB	(cc=0.4479)	info on Rv2592c/ruvB
Rv2202c/adoK	(cc=0.4389)	info on Rv2202c/adoK
Rv1080c/greA	(cc=0.4203)	info on Rv1080c/greA
Rv3722c/-	(cc=0.4105)	info on Rv3722c/-
Rv1822/pgsA2	(cc=0.4086)	info on Rv1822/pgsA2
Rv1275/lprC	(cc=0.4079)	info on Rv1275/lprC

Correlation of Rv2245/kasA with Rv2785c/rpsO

Normalized LFCs for Rv2245/kasA:
(description and provenance of datasets)

	Rv2245/kasA	Rv2785c/rpsO
Fe_supp_jason_reseq	0.38	0.0
low_pH_jason_reseq	0.0	1.419
NO_jason_reseq	-0.362	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	0.0	-0.3
Rifampicin4	0.0	0.712
Ethambutol3	0.0	1.927
Meropenem3	0.0	1.016
Vancomycin16	0.0	2.106
Rv2680_day32	0.131	0.0
H37Rv_KO_MarP	-0.195	0.871
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	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	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.0	0.0
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.37
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	0.0	0.0
H37Rv_KO_CtpD	0.445	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.099
H37Rv_KO_MbtN	0.0	0.103
Trans05	0.0	0.131
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	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-0.314	-1.688
Rv1565c_day32	0.0	-0.736
secA2_input	1.061	0.18
delta_Rv3594	0.0	0.606
delta_Rv3717	0.736	0.57
delta_Rv3811	1.966	4.142
delta_Rv0954	0.0	-0.32
PonA1	0.0	-0.91
EccD1_KO	0.0	-2.496
EspI_KO	0.0	-2.165
PE35_KO	0.403	-1.902
PPE68_KO	0.0	-2.428
glycerol2	0.0	0.0
lignocerate	0.168	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-0.416	-2.087
Rv1096ko	0.0	-1.463
Rv3684ko	-0.452	-1.284
delta_otsA_trehalose	-0.133	0.0