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 Rv0456A/mazF1:

update plot	correlation	link to info on gene
Rv3163c/-	(cc=0.562)	info on Rv3163c/-
Rv0888/-	(cc=0.5245)	info on Rv0888/-
Rv3038c/-	(cc=0.4971)	info on Rv3038c/-
Rv0182c/sigG	(cc=0.4705)	info on Rv0182c/sigG
Rv2287/yjcE	(cc=0.4655)	info on Rv2287/yjcE
Rv1733c/-	(cc=0.4553)	info on Rv1733c/-
Rv0583c/lpqN	(cc=0.4476)	info on Rv0583c/lpqN
Rv1960c/parD1	(cc=0.4465)	info on Rv1960c/parD1
Rv2625c/-	(cc=0.4433)	info on Rv2625c/-
Rv2885c/-	(cc=0.4417)	info on Rv2885c/-

Correlation of Rv0456A/mazF1 with Rv0888/-

Normalized LFCs for Rv0456A/mazF1:
(description and provenance of datasets)

	Rv0456A/mazF1	Rv0888/-
Fe_supp_jason_reseq	-1.814	-0.245
low_pH_jason_reseq	-0.56	0.04
NO_jason_reseq	-0.609	-0.284
B6_jason_reseq	-0.231	0.32
MHCII_jason_reseq	-0.245	0.175
Isoniazid02	-0.047	-0.31
Rifampicin4	-0.051	0.298
Ethambutol3	-0.055	0.852
Meropenem3	-0.054	-0.719
Vancomycin16	-0.066	-0.257
Rv2680_day32	1.591	0.477
H37Rv_KO_MarP	0.323	0.477
hypoxia_3wks	-0.084	-0.275
hypoxia_6wks	-0.263	-0.196
glycerol	-0.654	-0.582
cholesterol	-1.105	-0.453
AJ	-0.182	0.262
Bibs02	0.237	0.309
Bibs02c	-0.185	-0.255
BL6	0.271	0.675
BL6a	-0.518	0.207
BXD01	-0.128	0.515
BXD010	0.166	0.482
BXD011	-0.669	0.18
BXD03	0.738	0.136
BXD04	0.249	0.58
BXD05	-0.06	0.473
BXD06	0.077	0.378
BXD07	-0.062	0.392
BXD08	0.143	0.764
BXD09	-0.34	0.353
CAST	-1.038	0.389
CCcont	-1.218	0.327
DS01	0.801	0.188
DS02	-0.551	0.098
DS04	-0.579	0.178
DS0c	-0.083	0.28
GP01	0.249	0.667
GP02	0.467	0.806
GP0c	-1.414	-0.262
NOD	-0.918	0.825
NZO	0.962	0.019
PWK	-0.247	0.837
H37Rv_KO_CtpC	-0.561	-0.198
H37Rv_KO_CtpD	0.854	0.204
H37Rv_KO_Rv1272	-0.475	0.094
H37Rv_KO_SugABC	-1.867	-0.162
H37Rv_KO_MbtN	-0.019	0.042
Trans05	-1.731	0.501
macrophage_unactivated	-0.991	0.038
IL1	-1.08	-0.421
Rapamycin	-2.311	-0.436
Tcell	0.14	-0.101
GMCSF	-1.875	-0.285
IFNab	-0.414	-0.49
IFNg	-1.898	-0.016
IFNg_GMCSF1	-1.144	-0.509
Rv1432_day32	-0.038	0.79
Rv1565c_day32	-0.006	0.687
secA2_input	-1.403	-0.402
delta_Rv3594	0.489	0.672
delta_Rv3717	0.602	0.586
delta_Rv3811	0.602	0.626
delta_Rv0954	0.939	1.119
PonA1	0.946	1.309
EccD1_KO	0.947	0.589
EspI_KO	0.63	0.944
PE35_KO	1.482	0.683
PPE68_KO	0.787	0.918
glycerol2	0.331	0.419
lignocerate	-0.472	0.659
oleate	0.893	0.193
phosphatidylcholine	0.549	0.45
acetate	-1.453	0.088
glucAc	-1.472	0.342
Rv0950ko	-0.253	0.736
Rv1096ko	0.682	0.847
Rv3684ko	0.373	0.547
delta_otsA_trehalose	-0.244	0.916