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 Rv3176c/mesT

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

	Rv3836/-	Rv3176c/mesT
Fe_supp_jason_reseq	-1.32	-0.336
low_pH_jason_reseq	-0.793	0.391
NO_jason_reseq	0.685	0.583
B6_jason_reseq	-0.122	-0.721
MHCII_jason_reseq	-0.063	-0.592
Isoniazid02	0.287	-0.589
Rifampicin4	0.122	-0.39
Ethambutol3	0.295	-0.204
Meropenem3	0.401	-0.744
Vancomycin16	0.175	-0.6
Rv2680_day32	-0.335	0.521
H37Rv_KO_MarP	1.054	0.608
hypoxia_3wks	0.279	0.399
hypoxia_6wks	-0.612	-0.672
glycerol	-0.026	0.544
cholesterol	0.115	0.662
AJ	0.116	0.474
Bibs02	0.844	0.605
Bibs02c	0.276	-1.234
BL6	0.273	1.063
BL6a	0.522	0.684
BXD01	0.437	0.663
BXD010	0.161	0.424
BXD011	0.427	1.035
BXD03	0.49	0.6
BXD04	-0.195	0.409
BXD05	0.772	0.405
BXD06	0.69	1.316
BXD07	-0.072	1.398
BXD08	0.337	1.056
BXD09	0.398	0.733
CAST	0.584	0.796
CCcont	0.689	1.05
DS01	-0.062	1.016
DS02	0.041	1.024
DS04	-0.923	0.363
DS0c	-0.544	-0.284
GP01	-0.085	1.134
GP02	1.926	1.321
GP0c	0.746	1.501
NOD	-0.163	-0.63
NZO	1.458	0.6
PWK	0.202	-0.124
H37Rv_KO_CtpC	0.46	1.001
H37Rv_KO_CtpD	0.048	-0.389
H37Rv_KO_Rv1272	0.561	1.826
H37Rv_KO_SugABC	1.408	1.559
H37Rv_KO_MbtN	0.088	-0.209
Trans05	-0.416	1.509
macrophage_unactivated	0.0	0.426
IL1	0.973	0.442
Rapamycin	0.258	0.669
Tcell	0.199	0.485
GMCSF	0.393	1.199
IFNab	-0.45	0.184
IFNg	-0.468	0.51
IFNg_GMCSF1	-0.305	0.468
Rv1432_day32	0.078	1.229
Rv1565c_day32	-2.889	-1.21
secA2_input	0.723	0.593
delta_Rv3594	-0.531	0.393
delta_Rv3717	0.167	0.305
delta_Rv3811	0.238	1.054
delta_Rv0954	0.0	1.337
PonA1	0.422	0.592
EccD1_KO	-1.273	-0.947
EspI_KO	-0.964	-0.918
PE35_KO	-0.662	0.63
PPE68_KO	-0.889	0.95
glycerol2	1.037	-0.025
lignocerate	0.975	0.6
oleate	0.683	-0.299
phosphatidylcholine	0.675	0.235
acetate	0.366	1.26
glucAc	0.118	1.006
Rv0950ko	-0.555	-0.416
Rv1096ko	-0.579	-0.078
Rv3684ko	-1.503	-0.357
delta_otsA_trehalose	-0.871	-0.608