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 Rv1190/-:

update plot	correlation	link to info on gene
Rv2208/cobS	(cc=0.5103)	info on Rv2208/cobS
Rv0590A/-	(cc=0.4855)	info on Rv0590A/-
Rv3353c/-	(cc=0.4852)	info on Rv3353c/-
Rv2281/pitB	(cc=0.4847)	info on Rv2281/pitB
Rv0906/-	(cc=0.4783)	info on Rv0906/-
Rv0376c/-	(cc=0.4777)	info on Rv0376c/-
Rv2237/-	(cc=0.4768)	info on Rv2237/-
Rv0278c/PE_PGRS3	(cc=0.4717)	info on Rv0278c/PE_PGRS3
Rv3335c/-	(cc=0.4683)	info on Rv3335c/-
Rv0488/-	(cc=0.4605)	info on Rv0488/-

Correlation of Rv1190/- with Rv0488/-

Normalized LFCs for Rv1190/-:
(description and provenance of datasets)

	Rv1190/-	Rv0488/-
Fe_supp_jason_reseq	-0.126	0.414
low_pH_jason_reseq	0.037	-0.013
NO_jason_reseq	1.105	-0.323
B6_jason_reseq	0.834	0.749
MHCII_jason_reseq	-0.149	0.793
Isoniazid02	-1.247	-1.829
Rifampicin4	-0.29	0.257
Ethambutol3	-1.002	-1.35
Meropenem3	-0.712	-1.118
Vancomycin16	-0.679	-0.586
Rv2680_day32	0.752	0.82
H37Rv_KO_MarP	-0.317	0.219
hypoxia_3wks	-0.881	-1.244
hypoxia_6wks	0.461	0.123
glycerol	1.062	-1.166
cholesterol	0.753	-0.197
AJ	0.376	0.756
Bibs02	1.127	0.636
Bibs02c	1.664	0.855
BL6	-0.075	-0.052
BL6a	1.167	0.05
BXD01	-0.025	-0.416
BXD010	0.768	0.746
BXD011	0.037	-0.347
BXD03	0.429	0.368
BXD04	0.428	-0.915
BXD05	0.942	-0.122
BXD06	0.543	-0.007
BXD07	0.336	0.014
BXD08	0.281	-0.53
BXD09	0.581	-0.44
CAST	0.152	0.617
CCcont	0.029	-0.265
DS01	0.833	1.574
DS02	0.706	1.241
DS04	0.559	0.966
DS0c	0.476	1.381
GP01	0.855	-0.827
GP02	-0.595	-0.615
GP0c	0.285	-0.547
NOD	0.439	-0.687
NZO	-0.315	-0.116
PWK	-0.223	-0.02
H37Rv_KO_CtpC	0.806	0.016
H37Rv_KO_CtpD	-0.32	0.379
H37Rv_KO_Rv1272	0.156	0.963
H37Rv_KO_SugABC	-1.388	0.226
H37Rv_KO_MbtN	0.087	0.741
Trans05	1.051	-0.391
macrophage_unactivated	0.824	-0.489
IL1	-0.845	-1.771
Rapamycin	0.328	-1.071
Tcell	-1.196	-0.593
GMCSF	0.731	-0.605
IFNab	-0.862	0.073
IFNg	-0.099	-0.69
IFNg_GMCSF1	-0.179	0.368
Rv1432_day32	0.627	0.438
Rv1565c_day32	-1.022	0.035
secA2_input	0.719	-0.099
delta_Rv3594	0.13	0.355
delta_Rv3717	1.62	-0.279
delta_Rv3811	1.096	0.067
delta_Rv0954	1.052	0.039
PonA1	1.545	-0.32
EccD1_KO	-0.214	0.247
EspI_KO	0.211	1.223
PE35_KO	0.388	0.315
PPE68_KO	-0.793	0.285
glycerol2	1.618	1.883
lignocerate	2.3	2.04
oleate	0.091	0.608
phosphatidylcholine	1.795	1.756
acetate	2.241	2.287
glucAc	1.897	1.932
Rv0950ko	-0.401	0.745
Rv1096ko	1.65	-0.507
Rv3684ko	0.4	-0.406
delta_otsA_trehalose	-1.378	0.152