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 Rv0467/icl1

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

	Rv1324/-	Rv0467/icl1
Fe_supp_jason_reseq	0.415	0.182
low_pH_jason_reseq	0.0	-0.211
NO_jason_reseq	0.0	-0.69
B6_jason_reseq	0.0	-0.292
MHCII_jason_reseq	0.135	-0.257
Isoniazid02	2.474	0.201
Rifampicin4	0.969	0.712
Ethambutol3	0.347	0.59
Meropenem3	-0.359	0.165
Vancomycin16	0.95	0.366
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.371	0.586
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.385	0.554
cholesterol	0.614	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	1.765
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.194	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	0.38	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.127	0.537
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.0
H37Rv_KO_MbtN	0.103	0.196
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	1.77
delta_Rv3594	1.741	-0.193
delta_Rv3717	0.964	-0.159
delta_Rv3811	1.139	-0.391
delta_Rv0954	1.196	0.65
PonA1	0.0	-0.304
EccD1_KO	-0.306	0.0
EspI_KO	-0.55	1.859
PE35_KO	2.783	2.917
PPE68_KO	2.902	2.678
glycerol2	-0.643	-1.073
lignocerate	-1.386	-0.933
oleate	-1.076	-1.086
phosphatidylcholine	-1.401	-1.073
acetate	0.579	0.136
glucAc	-1.176	0.451
Rv0950ko	-1.571	-1.182
Rv1096ko	-2.886	-2.434
Rv3684ko	-1.706	-1.284
delta_otsA_trehalose	0.4	0.0