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 Rv1365c/rsfA

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

	Rv3658c/-	Rv1365c/rsfA
Fe_supp_jason_reseq	1.08	0.415
low_pH_jason_reseq	0.341	-0.022
NO_jason_reseq	-0.116	-1.57
B6_jason_reseq	0.347	0.269
MHCII_jason_reseq	0.934	-0.315
Isoniazid02	-0.215	-0.968
Rifampicin4	1.148	0.623
Ethambutol3	0.084	-0.809
Meropenem3	0.476	-0.996
Vancomycin16	0.682	-0.422
Rv2680_day32	0.244	0.526
H37Rv_KO_MarP	0.549	0.474
hypoxia_3wks	0.291	0.562
hypoxia_6wks	-1.222	0.173
glycerol	0.26	0.492
cholesterol	-0.156	0.559
AJ	-1.489	-0.583
Bibs02	0.494	0.546
Bibs02c	-0.815	2.099
BL6	0.659	1.781
BL6a	0.663	1.759
BXD01	0.0	0.977
BXD010	0.276	1.214
BXD011	0.394	1.783
BXD03	1.174	0.909
BXD04	-0.022	1.551
BXD05	0.578	0.982
BXD06	0.797	1.132
BXD07	0.84	1.649
BXD08	0.462	1.453
BXD09	1.077	1.469
CAST	0.297	0.522
CCcont	1.262	0.434
DS01	-0.041	0.944
DS02	0.699	1.705
DS04	0.649	2.689
DS0c	0.247	0.211
GP01	0.468	-1.344
GP02	-0.848	0.189
GP0c	0.044	-1.286
NOD	-1.238	-0.291
NZO	-0.069	-0.449
PWK	-0.669	-0.651
H37Rv_KO_CtpC	-0.175	0.672
H37Rv_KO_CtpD	0.105	-0.351
H37Rv_KO_Rv1272	-0.1	-0.183
H37Rv_KO_SugABC	-1.6	-1.06
H37Rv_KO_MbtN	-0.538	0.164
Trans05	-0.646	0.138
macrophage_unactivated	-0.915	1.367
IL1	0.851	0.786
Rapamycin	0.445	0.859
Tcell	-0.143	0.459
GMCSF	1.582	0.987
IFNab	0.84	1.061
IFNg	0.227	0.588
IFNg_GMCSF1	0.927	1.832
Rv1432_day32	0.0	0.591
Rv1565c_day32	0.404	-0.286
secA2_input	0.704	0.221
delta_Rv3594	-0.321	0.422
delta_Rv3717	0.091	0.581
delta_Rv3811	0.174	0.714
delta_Rv0954	0.659	0.778
PonA1	1.289	0.779
EccD1_KO	-0.602	0.842
EspI_KO	0.465	-0.297
PE35_KO	-1.068	0.254
PPE68_KO	-0.995	0.966
glycerol2	-1.033	-1.079
lignocerate	-0.448	-1.143
oleate	-1.131	-0.034
phosphatidylcholine	-0.721	-0.57
acetate	-0.637	-1.44
glucAc	-0.257	-1.679
Rv0950ko	-0.669	-2.035
Rv1096ko	-0.567	-0.44
Rv3684ko	0.878	-0.203
delta_otsA_trehalose	-0.336	0.0