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 Rv2847c/cysG

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

	Rv1324/-	Rv2847c/cysG
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	1.718
Rifampicin4	0.969	-0.271
Ethambutol3	0.347	-0.392
Meropenem3	-0.359	0.111
Vancomycin16	0.95	-0.265
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.371	-0.535
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.385	0.0
cholesterol	0.614	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.209
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	0.194	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.083
GP0c	0.0	0.13
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	0.437
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	-0.916
delta_Rv3594	1.741	0.0
delta_Rv3717	0.964	0.0
delta_Rv3811	1.139	0.0
delta_Rv0954	1.196	0.178
PonA1	0.0	0.304
EccD1_KO	-0.306	1.145
EspI_KO	-0.55	0.0
PE35_KO	2.783	1.578
PPE68_KO	2.902	1.731
glycerol2	-0.643	-0.531
lignocerate	-1.386	-0.462
oleate	-1.076	-0.537
phosphatidylcholine	-1.401	-0.531
acetate	0.579	-0.63
glucAc	-1.176	-0.392
Rv0950ko	-1.571	-0.582
Rv1096ko	-2.886	-0.582
Rv3684ko	-1.706	-0.632
delta_otsA_trehalose	0.4	0.468