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 Rv2918c/glnD

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

	Rv3836/-	Rv2918c/glnD
Fe_supp_jason_reseq	-1.32	-1.279
low_pH_jason_reseq	-0.793	-0.825
NO_jason_reseq	0.685	0.47
B6_jason_reseq	-0.122	-0.138
MHCII_jason_reseq	-0.063	0.079
Isoniazid02	0.287	-0.087
Rifampicin4	0.122	-0.301
Ethambutol3	0.295	-0.162
Meropenem3	0.401	0.661
Vancomycin16	0.175	0.05
Rv2680_day32	-0.335	-0.459
H37Rv_KO_MarP	1.054	0.449
hypoxia_3wks	0.279	0.159
hypoxia_6wks	-0.612	0.464
glycerol	-0.026	-0.718
cholesterol	0.115	-0.09
AJ	0.116	0.597
Bibs02	0.844	0.125
Bibs02c	0.276	0.887
BL6	0.273	0.176
BL6a	0.522	0.446
BXD01	0.437	-0.794
BXD010	0.161	-0.286
BXD011	0.427	-0.106
BXD03	0.49	0.44
BXD04	-0.195	-0.202
BXD05	0.772	0.891
BXD06	0.69	-0.349
BXD07	-0.072	-0.615
BXD08	0.337	-0.86
BXD09	0.398	-0.245
CAST	0.584	1.036
CCcont	0.689	-0.553
DS01	-0.062	0.248
DS02	0.041	0.577
DS04	-0.923	-0.294
DS0c	-0.544	1.018
GP01	-0.085	0.425
GP02	1.926	1.02
GP0c	0.746	-0.04
NOD	-0.163	0.374
NZO	1.458	0.692
PWK	0.202	0.791
H37Rv_KO_CtpC	0.46	0.505
H37Rv_KO_CtpD	0.048	0.11
H37Rv_KO_Rv1272	0.561	-1.022
H37Rv_KO_SugABC	1.408	0.521
H37Rv_KO_MbtN	0.088	0.207
Trans05	-0.416	-0.292
macrophage_unactivated	0.0	-0.413
IL1	0.973	0.225
Rapamycin	0.258	-0.675
Tcell	0.199	-0.485
GMCSF	0.393	-0.127
IFNab	-0.45	0.0
IFNg	-0.468	-0.043
IFNg_GMCSF1	-0.305	0.556
Rv1432_day32	0.078	-0.196
Rv1565c_day32	-2.889	-1.392
secA2_input	0.723	-0.601
delta_Rv3594	-0.531	0.076
delta_Rv3717	0.167	0.546
delta_Rv3811	0.238	0.589
delta_Rv0954	0.0	1.028
PonA1	0.422	0.585
EccD1_KO	-1.273	-0.431
EspI_KO	-0.964	-1.124
PE35_KO	-0.662	-0.382
PPE68_KO	-0.889	-0.883
glycerol2	1.037	-0.198
lignocerate	0.975	-0.217
oleate	0.683	-0.805
phosphatidylcholine	0.675	-0.661
acetate	0.366	-0.494
glucAc	0.118	-0.265
Rv0950ko	-0.555	0.289
Rv1096ko	-0.579	-0.184
Rv3684ko	-1.503	-1.005
delta_otsA_trehalose	-0.871	0.177