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 Rv0742/PE_PGRS8

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

	Rv3836/-	Rv0742/PE_PGRS8
Fe_supp_jason_reseq	-1.32	-1.888
low_pH_jason_reseq	-0.793	0.562
NO_jason_reseq	0.685	-0.538
B6_jason_reseq	-0.122	-1.831
MHCII_jason_reseq	-0.063	-2.072
Isoniazid02	0.287	-0.065
Rifampicin4	0.122	1.616
Ethambutol3	0.295	-0.044
Meropenem3	0.401	0.386
Vancomycin16	0.175	-0.024
Rv2680_day32	-0.335	0.605
H37Rv_KO_MarP	1.054	0.477
hypoxia_3wks	0.279	0.833
hypoxia_6wks	-0.612	-1.088
glycerol	-0.026	0.045
cholesterol	0.115	-0.366
AJ	0.116	0.128
Bibs02	0.844	-0.36
Bibs02c	0.276	0.799
BL6	0.273	1.464
BL6a	0.522	1.39
BXD01	0.437	1.329
BXD010	0.161	0.519
BXD011	0.427	1.026
BXD03	0.49	1.328
BXD04	-0.195	0.0
BXD05	0.772	1.827
BXD06	0.69	0.571
BXD07	-0.072	0.83
BXD08	0.337	1.234
BXD09	0.398	1.298
CAST	0.584	1.053
CCcont	0.689	1.218
DS01	-0.062	0.587
DS02	0.041	0.21
DS04	-0.923	0.266
DS0c	-0.544	-0.341
GP01	-0.085	2.262
GP02	1.926	1.611
GP0c	0.746	1.126
NOD	-0.163	-0.6
NZO	1.458	-0.448
PWK	0.202	0.573
H37Rv_KO_CtpC	0.46	1.092
H37Rv_KO_CtpD	0.048	0.494
H37Rv_KO_Rv1272	0.561	0.94
H37Rv_KO_SugABC	1.408	0.915
H37Rv_KO_MbtN	0.088	0.937
Trans05	-0.416	1.328
macrophage_unactivated	0.0	0.922
IL1	0.973	0.581
Rapamycin	0.258	0.703
Tcell	0.199	0.766
GMCSF	0.393	1.328
IFNab	-0.45	0.287
IFNg	-0.468	-0.561
IFNg_GMCSF1	-0.305	0.229
Rv1432_day32	0.078	1.042
Rv1565c_day32	-2.889	-1.703
secA2_input	0.723	1.249
delta_Rv3594	-0.531	-0.405
delta_Rv3717	0.167	-0.447
delta_Rv3811	0.238	-0.428
delta_Rv0954	0.0	-0.868
PonA1	0.422	-2.069
EccD1_KO	-1.273	-0.257
EspI_KO	-0.964	-0.807
PE35_KO	-0.662	-0.166
PPE68_KO	-0.889	0.0
glycerol2	1.037	0.792
lignocerate	0.975	0.737
oleate	0.683	1.311
phosphatidylcholine	0.675	1.045
acetate	0.366	0.359
glucAc	0.118	0.254
Rv0950ko	-0.555	-0.205
Rv1096ko	-0.579	-0.54
Rv3684ko	-1.503	-0.793
delta_otsA_trehalose	-0.871	-0.388