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 Rv3658c/-:

update plot	correlation	link to info on gene
Rv0619/galTb	(cc=0.4425)	info on Rv0619/galTb
Rv3565/aspB	(cc=0.4249)	info on Rv3565/aspB
Rv3438/-	(cc=0.4106)	info on Rv3438/-
Rv3043c/ctaD	(cc=0.4068)	info on Rv3043c/ctaD
Rv3489/-	(cc=0.4013)	info on Rv3489/-
Rv0665/vapC8	(cc=0.3982)	info on Rv0665/vapC8
Rv1365c/rsfA	(cc=0.3935)	info on Rv1365c/rsfA
Rv2849c/cobO	(cc=0.3885)	info on Rv2849c/cobO
Rv3705c/-	(cc=0.3867)	info on Rv3705c/-
Rv3793/embC	(cc=0.3857)	info on Rv3793/embC

Correlation of Rv3658c/- with Rv3043c/ctaD

Normalized LFCs for Rv3658c/-:
(description and provenance of datasets)

	Rv3658c/-	Rv3043c/ctaD
Fe_supp_jason_reseq	1.08	0.598
low_pH_jason_reseq	0.341	0.0
NO_jason_reseq	-0.116	0.69
B6_jason_reseq	0.347	0.0
MHCII_jason_reseq	0.934	0.0
Isoniazid02	-0.215	-0.383
Rifampicin4	1.148	0.311
Ethambutol3	0.084	0.14
Meropenem3	0.476	-0.315
Vancomycin16	0.682	0.0
Rv2680_day32	0.244	0.0
H37Rv_KO_MarP	0.549	0.423
hypoxia_3wks	0.291	0.0
hypoxia_6wks	-1.222	0.0
glycerol	0.26	0.202
cholesterol	-0.156	0.0
AJ	-1.489	0.0
Bibs02	0.494	0.0
Bibs02c	-0.815	0.0
BL6	0.659	0.238
BL6a	0.663	0.0
BXD01	0.0	0.13
BXD010	0.276	0.0
BXD011	0.394	0.0
BXD03	1.174	0.0
BXD04	-0.022	0.0
BXD05	0.578	0.0
BXD06	0.797	0.0
BXD07	0.84	0.0
BXD08	0.462	0.133
BXD09	1.077	0.14
CAST	0.297	0.0
CCcont	1.262	0.525
DS01	-0.041	0.236
DS02	0.699	0.0
DS04	0.649	0.0
DS0c	0.247	0.0
GP01	0.468	0.0
GP02	-0.848	0.0
GP0c	0.044	0.0
NOD	-1.238	0.0
NZO	-0.069	0.199
PWK	-0.669	0.0
H37Rv_KO_CtpC	-0.175	0.0
H37Rv_KO_CtpD	0.105	0.703
H37Rv_KO_Rv1272	-0.1	0.0
H37Rv_KO_SugABC	-1.6	0.189
H37Rv_KO_MbtN	-0.538	0.103
Trans05	-0.646	0.0
macrophage_unactivated	-0.915	0.0
IL1	0.851	0.0
Rapamycin	0.445	0.0
Tcell	-0.143	0.45
GMCSF	1.582	0.0
IFNab	0.84	0.0
IFNg	0.227	0.0
IFNg_GMCSF1	0.927	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.404	0.0
secA2_input	0.704	1.694
delta_Rv3594	-0.321	-0.402
delta_Rv3717	0.091	-0.331
delta_Rv3811	0.174	-0.187
delta_Rv0954	0.659	0.0
PonA1	1.289	0.851
EccD1_KO	-0.602	-0.73
EspI_KO	0.465	-0.633
PE35_KO	-1.068	-0.648
PPE68_KO	-0.995	-0.71
glycerol2	-1.033	-0.82
lignocerate	-0.448	-0.712
oleate	-1.131	-0.829
phosphatidylcholine	-0.721	-0.626
acetate	-0.637	-0.535
glucAc	-0.257	-0.103
Rv0950ko	-0.669	0.0
Rv1096ko	-0.567	-0.347
Rv3684ko	0.878	-0.377
delta_otsA_trehalose	-0.336	-0.103