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 Rv1191/-:

update plot	correlation	link to info on gene
Rv0273c/-	(cc=0.5107)	info on Rv0273c/-
Rv2591/PE_PGRS44	(cc=0.4738)	info on Rv2591/PE_PGRS44
Rv3344c/PE_PGRS49	(cc=0.4713)	info on Rv3344c/PE_PGRS49
Rv2487c/PE_PGRS42	(cc=0.4664)	info on Rv2487c/PE_PGRS42
Rv2850c/-	(cc=0.4455)	info on Rv2850c/-
Rv3338/-	(cc=0.4412)	info on Rv3338/-
Rv3539/PPE63	(cc=0.4401)	info on Rv3539/PPE63
Rv2769c/PE27	(cc=0.4373)	info on Rv2769c/PE27
Rv1546/-	(cc=0.436)	info on Rv1546/-
Rv1985c/-	(cc=0.4336)	info on Rv1985c/-

Correlation of Rv1191/- with Rv2850c/-

Normalized LFCs for Rv1191/-:
(description and provenance of datasets)

	Rv1191/-	Rv2850c/-
Fe_supp_jason_reseq	-1.689	-0.344
low_pH_jason_reseq	-1.544	-0.979
NO_jason_reseq	-0.546	-0.572
B6_jason_reseq	-1.175	-0.691
MHCII_jason_reseq	0.137	0.596
Isoniazid02	-0.333	-0.519
Rifampicin4	0.455	0.357
Ethambutol3	0.049	-0.344
Meropenem3	3.004	-0.255
Vancomycin16	-0.037	0.302
Rv2680_day32	0.224	0.464
H37Rv_KO_MarP	0.096	0.0
hypoxia_3wks	0.195	-1.005
hypoxia_6wks	-0.487	-0.827
glycerol	1.063	1.409
cholesterol	0.683	0.721
AJ	-0.385	0.197
Bibs02	-0.123	0.272
Bibs02c	-0.362	-0.076
BL6	0.314	0.446
BL6a	-0.343	-0.515
BXD01	0.772	1.279
BXD010	0.418	0.565
BXD011	0.183	-0.069
BXD03	-0.342	-1.105
BXD04	0.366	-0.067
BXD05	-0.134	-0.512
BXD06	-0.398	0.371
BXD07	-0.403	0.44
BXD08	1.069	0.37
BXD09	-0.409	-0.334
CAST	-0.43	-0.399
CCcont	-0.971	-0.027
DS01	-1.129	-0.219
DS02	-1.252	-0.331
DS04	-0.193	0.856
DS0c	-1.017	-0.244
GP01	-0.018	0.162
GP02	1.19	0.878
GP0c	-0.473	0.362
NOD	-1.316	-0.164
NZO	-0.048	-1.276
PWK	0.321	0.199
H37Rv_KO_CtpC	-0.498	-0.422
H37Rv_KO_CtpD	-0.629	1.337
H37Rv_KO_Rv1272	0.732	0.777
H37Rv_KO_SugABC	-0.098	0.302
H37Rv_KO_MbtN	0.435	-0.925
Trans05	1.466	-0.147
macrophage_unactivated	-0.379	-0.17
IL1	-1.204	-1.077
Rapamycin	0.028	-1.329
Tcell	-0.088	0.0
GMCSF	-0.951	-0.449
IFNab	-1.336	-1.533
IFNg	-0.903	-0.454
IFNg_GMCSF1	-0.99	-0.726
Rv1432_day32	-0.034	0.55
Rv1565c_day32	-0.472	0.673
secA2_input	-0.883	-0.045
delta_Rv3594	-0.541	0.439
delta_Rv3717	-0.209	0.23
delta_Rv3811	-0.39	0.208
delta_Rv0954	0.382	0.659
PonA1	0.172	-0.566
EccD1_KO	-0.46	-0.865
EspI_KO	-1.041	-0.975
PE35_KO	-0.986	-1.178
PPE68_KO	-1.344	-1.648
glycerol2	0.321	0.717
lignocerate	-0.423	0.746
oleate	0.784	0.618
phosphatidylcholine	0.374	0.99
acetate	-0.545	0.103
glucAc	-1.392	0.146
Rv0950ko	0.027	0.769
Rv1096ko	0.609	0.829
Rv3684ko	0.832	0.223
delta_otsA_trehalose	-0.704	0.0