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 Rv2983/-

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

	Rv1324/-	Rv2983/-
Fe_supp_jason_reseq	0.415	0.218
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.292
MHCII_jason_reseq	0.135	0.135
Isoniazid02	2.474	2.89
Rifampicin4	0.969	2.142
Ethambutol3	0.347	1.249
Meropenem3	-0.359	0.189
Vancomycin16	0.95	2.183
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.371	1.112
hypoxia_3wks	0.0	-0.502
hypoxia_6wks	0.0	-0.549
glycerol	0.385	0.856
cholesterol	0.614	1.504
AJ	0.0	0.232
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	0.135
BXD06	0.0	0.133
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.0	1.082
DS01	0.0	1.947
DS02	0.0	0.0
DS04	0.194	0.194
DS0c	0.0	0.596
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	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.099
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	-0.485
delta_Rv3594	1.741	1.811
delta_Rv3717	0.964	0.0
delta_Rv3811	1.139	0.934
delta_Rv0954	1.196	0.811
PonA1	0.0	1.367
EccD1_KO	-0.306	-0.664
EspI_KO	-0.55	-1.243
PE35_KO	2.783	1.52
PPE68_KO	2.902	1.667
glycerol2	-0.643	-1.297
lignocerate	-1.386	-2.345
oleate	-1.076	-2.358
phosphatidylcholine	-1.401	-2.697
acetate	0.579	-1.102
glucAc	-1.176	-1.49
Rv0950ko	-1.571	-1.294
Rv1096ko	-2.886	-0.256
Rv3684ko	-1.706	-0.727
delta_otsA_trehalose	0.4	-0.111