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 Rv0235c/-

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

	Rv3836/-	Rv0235c/-
Fe_supp_jason_reseq	-1.32	-0.783
low_pH_jason_reseq	-0.793	-0.204
NO_jason_reseq	0.685	0.0
B6_jason_reseq	-0.122	-0.687
MHCII_jason_reseq	-0.063	-0.63
Isoniazid02	0.287	0.164
Rifampicin4	0.122	0.0
Ethambutol3	0.295	0.035
Meropenem3	0.401	0.035
Vancomycin16	0.175	0.0
Rv2680_day32	-0.335	0.105
H37Rv_KO_MarP	1.054	0.155
hypoxia_3wks	0.279	0.191
hypoxia_6wks	-0.612	-0.443
glycerol	-0.026	0.075
cholesterol	0.115	-0.055
AJ	0.116	0.086
Bibs02	0.844	-1.13
Bibs02c	0.276	0.039
BL6	0.273	1.27
BL6a	0.522	1.072
BXD01	0.437	1.126
BXD010	0.161	0.904
BXD011	0.427	0.508
BXD03	0.49	1.42
BXD04	-0.195	1.098
BXD05	0.772	0.447
BXD06	0.69	0.863
BXD07	-0.072	1.406
BXD08	0.337	0.874
BXD09	0.398	0.578
CAST	0.584	0.205
CCcont	0.689	1.15
DS01	-0.062	0.044
DS02	0.041	-0.082
DS04	-0.923	0.394
DS0c	-0.544	-0.041
GP01	-0.085	1.319
GP02	1.926	2.076
GP0c	0.746	0.788
NOD	-0.163	0.866
NZO	1.458	0.212
PWK	0.202	0.571
H37Rv_KO_CtpC	0.46	1.221
H37Rv_KO_CtpD	0.048	-0.661
H37Rv_KO_Rv1272	0.561	0.451
H37Rv_KO_SugABC	1.408	1.891
H37Rv_KO_MbtN	0.088	0.462
Trans05	-0.416	1.231
macrophage_unactivated	0.0	0.805
IL1	0.973	0.0
Rapamycin	0.258	-0.592
Tcell	0.199	0.209
GMCSF	0.393	0.708
IFNab	-0.45	-0.756
IFNg	-0.468	-0.775
IFNg_GMCSF1	-0.305	-0.666
Rv1432_day32	0.078	1.25
Rv1565c_day32	-2.889	0.0
secA2_input	0.723	-0.031
delta_Rv3594	-0.531	0.909
delta_Rv3717	0.167	0.893
delta_Rv3811	0.238	0.721
delta_Rv0954	0.0	0.699
PonA1	0.422	0.278
EccD1_KO	-1.273	0.0
EspI_KO	-0.964	-0.419
PE35_KO	-0.662	-0.28
PPE68_KO	-0.889	0.099
glycerol2	1.037	1.1
lignocerate	0.975	0.956
oleate	0.683	0.719
phosphatidylcholine	0.675	0.634
acetate	0.366	0.459
glucAc	0.118	1.092
Rv0950ko	-0.555	-0.292
Rv1096ko	-0.579	-0.048
Rv3684ko	-1.503	-0.373
delta_otsA_trehalose	-0.871	-1.372