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 Rv1324/-:

update plot	correlation	link to info on gene
Rv2470/glbO	(cc=0.7257)	info on Rv2470/glbO
Rv2847c/cysG	(cc=0.7147)	info on Rv2847c/cysG
Rv2983/-	(cc=0.7073)	info on Rv2983/-
Rv3603c/-	(cc=0.7011)	info on Rv3603c/-
Rv2518c/ldtB	(cc=0.6686)	info on Rv2518c/ldtB
Rv2393/che1	(cc=0.6605)	info on Rv2393/che1
Rv2215/dlaT	(cc=0.6447)	info on Rv2215/dlaT
Rv3588c/canB	(cc=0.6324)	info on Rv3588c/canB
Rv0467/icl1	(cc=0.6292)	info on Rv0467/icl1
Rv3490/otsA	(cc=0.6271)	info on Rv3490/otsA

Correlation of Rv1324/- with Rv2215/dlaT

Normalized LFCs for Rv1324/-:
(description and provenance of datasets)

	Rv1324/-	Rv2215/dlaT
Fe_supp_jason_reseq	0.415	0.0
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	0.135	0.0
Isoniazid02	2.474	0.0
Rifampicin4	0.969	0.0
Ethambutol3	0.347	0.0
Meropenem3	-0.359	0.0
Vancomycin16	0.95	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.371	-0.123
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.385	0.0
cholesterol	0.614	0.145
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.198
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	0.194	0.0
DS0c	0.0	0.0
GP01	0.0	1.062
GP02	0.0	0.462
GP0c	0.0	1.072
NOD	0.0	0.0
NZO	0.38	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.127	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.0
H37Rv_KO_MbtN	0.103	0.0
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	0.599	0.0
secA2_input	-0.806	-0.216
delta_Rv3594	1.741	1.297
delta_Rv3717	0.964	0.331
delta_Rv3811	1.139	0.87
delta_Rv0954	1.196	0.178
PonA1	0.0	1.387
EccD1_KO	-0.306	-0.414
EspI_KO	-0.55	0.0
PE35_KO	2.783	1.467
PPE68_KO	2.902	0.71
glycerol2	-0.643	-0.369
lignocerate	-1.386	-0.32
oleate	-1.076	-0.373
phosphatidylcholine	-1.401	-0.368
acetate	0.579	-0.437
glucAc	-1.176	-0.272
Rv0950ko	-1.571	-0.28
Rv1096ko	-2.886	-1.252
Rv3684ko	-1.706	-0.632
delta_otsA_trehalose	0.4	-0.133