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 Rv2690c/-:

update plot	correlation	link to info on gene
Rv3200c/-	(cc=0.5603)	info on Rv3200c/-
Rv2983/-	(cc=0.5018)	info on Rv2983/-
Rv3490/otsA	(cc=0.4802)	info on Rv3490/otsA
Rv2397c/cysA1	(cc=0.4793)	info on Rv2397c/cysA1
Rv1324/-	(cc=0.478)	info on Rv1324/-
Rv2256c/-	(cc=0.4574)	info on Rv2256c/-
Rv2837c/-	(cc=0.4454)	info on Rv2837c/-
Rv2785c/rpsO	(cc=0.4444)	info on Rv2785c/rpsO
Rv1340/rphA	(cc=0.4438)	info on Rv1340/rphA
Rv0541c/-	(cc=0.4309)	info on Rv0541c/-

Correlation of Rv2690c/- with Rv1324/-

Normalized LFCs for Rv2690c/-:
(description and provenance of datasets)

	Rv2690c/-	Rv1324/-
Fe_supp_jason_reseq	0.0	0.415
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.135
Isoniazid02	0.437	2.474
Rifampicin4	1.681	0.969
Ethambutol3	0.251	0.347
Meropenem3	0.562	-0.359
Vancomycin16	2.502	0.95
Rv2680_day32	-0.249	0.0
H37Rv_KO_MarP	-1.317	-0.371
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.385
cholesterol	1.663	0.614
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	0.285	0.0
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.533	0.194
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	0.38
PWK	0.0	0.0
H37Rv_KO_CtpC	0.162	0.0
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	1.783	0.099
H37Rv_KO_MbtN	0.283	0.103
Trans05	0.0	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	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.599
secA2_input	-0.916	-0.806
delta_Rv3594	1.086	1.741
delta_Rv3717	0.563	0.964
delta_Rv3811	1.282	1.139
delta_Rv0954	0.311	1.196
PonA1	0.145	0.0
EccD1_KO	-0.678	-0.306
EspI_KO	-0.918	-0.55
PE35_KO	0.767	2.783
PPE68_KO	0.298	2.902
glycerol2	0.0	-0.643
lignocerate	0.0	-1.386
oleate	0.0	-1.076
phosphatidylcholine	0.0	-1.401
acetate	0.0	0.579
glucAc	0.0	-1.176
Rv0950ko	-1.251	-1.571
Rv1096ko	0.262	-2.886
Rv3684ko	-0.982	-1.706
delta_otsA_trehalose	-0.014	0.4