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 Rv3836/-:

update plot	correlation	link to info on gene
Rv0742/PE_PGRS8	(cc=0.5072)	info on Rv0742/PE_PGRS8
Rv2161c/-	(cc=0.4692)	info on Rv2161c/-
Rv3425/PPE57	(cc=0.4678)	info on Rv3425/PPE57
Rv3176c/mesT	(cc=0.4678)	info on Rv3176c/mesT
Rv3312A/-	(cc=0.4501)	info on Rv3312A/-
Rv0235c/-	(cc=0.4446)	info on Rv0235c/-
Rv1489/-	(cc=0.4367)	info on Rv1489/-
Rv1879/-	(cc=0.4315)	info on Rv1879/-
Rv2918c/glnD	(cc=0.4206)	info on Rv2918c/glnD
Rv0215c/fadE3	(cc=0.4177)	info on Rv0215c/fadE3

Correlation of Rv3836/- with Rv3312A/-

Normalized LFCs for Rv3836/-:
(description and provenance of datasets)

	Rv3836/-	Rv3312A/-
Fe_supp_jason_reseq	-1.32	-0.35
low_pH_jason_reseq	-0.793	-0.132
NO_jason_reseq	0.685	0.893
B6_jason_reseq	-0.122	1.266
MHCII_jason_reseq	-0.063	0.295
Isoniazid02	0.287	0.941
Rifampicin4	0.122	0.742
Ethambutol3	0.295	0.548
Meropenem3	0.401	2.13
Vancomycin16	0.175	0.727
Rv2680_day32	-0.335	-0.959
H37Rv_KO_MarP	1.054	0.344
hypoxia_3wks	0.279	-0.231
hypoxia_6wks	-0.612	-0.395
glycerol	-0.026	0.726
cholesterol	0.115	0.382
AJ	0.116	0.225
Bibs02	0.844	-1.288
Bibs02c	0.276	-0.975
BL6	0.273	-0.038
BL6a	0.522	-0.436
BXD01	0.437	0.434
BXD010	0.161	-0.436
BXD011	0.427	-0.098
BXD03	0.49	0.181
BXD04	-0.195	-0.474
BXD05	0.772	0.265
BXD06	0.69	0.331
BXD07	-0.072	0.75
BXD08	0.337	-0.034
BXD09	0.398	0.066
CAST	0.584	-0.017
CCcont	0.689	0.157
DS01	-0.062	-0.27
DS02	0.041	0.274
DS04	-0.923	0.022
DS0c	-0.544	0.064
GP01	-0.085	0.31
GP02	1.926	1.1
GP0c	0.746	0.597
NOD	-0.163	0.382
NZO	1.458	-0.377
PWK	0.202	-0.328
H37Rv_KO_CtpC	0.46	-0.717
H37Rv_KO_CtpD	0.048	0.144
H37Rv_KO_Rv1272	0.561	-0.912
H37Rv_KO_SugABC	1.408	-0.312
H37Rv_KO_MbtN	0.088	0.777
Trans05	-0.416	-0.372
macrophage_unactivated	0.0	0.133
IL1	0.973	0.113
Rapamycin	0.258	0.292
Tcell	0.199	0.336
GMCSF	0.393	-0.034
IFNab	-0.45	-0.804
IFNg	-0.468	0.551
IFNg_GMCSF1	-0.305	-0.478
Rv1432_day32	0.078	0.48
Rv1565c_day32	-2.889	-3.838
secA2_input	0.723	0.243
delta_Rv3594	-0.531	1.41
delta_Rv3717	0.167	1.221
delta_Rv3811	0.238	0.55
delta_Rv0954	0.0	1.469
PonA1	0.422	1.13
EccD1_KO	-1.273	-0.747
EspI_KO	-0.964	-0.374
PE35_KO	-0.662	-0.875
PPE68_KO	-0.889	-0.771
glycerol2	1.037	1.241
lignocerate	0.975	1.444
oleate	0.683	0.771
phosphatidylcholine	0.675	1.408
acetate	0.366	0.48
glucAc	0.118	0.764
Rv0950ko	-0.555	0.519
Rv1096ko	-0.579	0.452
Rv3684ko	-1.503	0.252
delta_otsA_trehalose	-0.871	-0.354