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 Rv2019/-:

update plot	correlation	link to info on gene
Rv2237/-	(cc=0.6506)	info on Rv2237/-
Rv2008c/-	(cc=0.6496)	info on Rv2008c/-
Rv1289/-	(cc=0.6429)	info on Rv1289/-
Rv2550c/vapB20	(cc=0.6143)	info on Rv2550c/vapB20
Rv0488/-	(cc=0.6115)	info on Rv0488/-
Rv0789c/-	(cc=0.6029)	info on Rv0789c/-
Rv2119/-	(cc=0.6019)	info on Rv2119/-
Rv2237A/-	(cc=0.596)	info on Rv2237A/-
Rv0963c/-	(cc=0.5944)	info on Rv0963c/-
Rv1489A/-	(cc=0.5773)	info on Rv1489A/-

Correlation of Rv2019/- with Rv0488/-

Normalized LFCs for Rv2019/-:
(description and provenance of datasets)

	Rv2019/-	Rv0488/-
Fe_supp_jason_reseq	0.44	0.414
low_pH_jason_reseq	-0.156	-0.013
NO_jason_reseq	-0.013	-0.323
B6_jason_reseq	0.823	0.749
MHCII_jason_reseq	0.456	0.793
Isoniazid02	0.118	-1.829
Rifampicin4	0.325	0.257
Ethambutol3	-0.124	-1.35
Meropenem3	0.059	-1.118
Vancomycin16	0.273	-0.586
Rv2680_day32	0.594	0.82
H37Rv_KO_MarP	-0.807	0.219
hypoxia_3wks	-0.845	-1.244
hypoxia_6wks	0.578	0.123
glycerol	-0.512	-1.166
cholesterol	0.244	-0.197
AJ	-0.373	0.756
Bibs02	-0.021	0.636
Bibs02c	-0.635	0.855
BL6	-0.386	-0.052
BL6a	-0.093	0.05
BXD01	-0.498	-0.416
BXD010	0.09	0.746
BXD011	0.606	-0.347
BXD03	-0.532	0.368
BXD04	-0.494	-0.915
BXD05	0.324	-0.122
BXD06	0.065	-0.007
BXD07	-0.054	0.014
BXD08	-0.214	-0.53
BXD09	0.063	-0.44
CAST	-0.584	0.617
CCcont	0.671	-0.265
DS01	0.474	1.574
DS02	0.517	1.241
DS04	0.822	0.966
DS0c	-0.702	1.381
GP01	-0.629	-0.827
GP02	-0.134	-0.615
GP0c	0.009	-0.547
NOD	0.068	-0.687
NZO	-0.046	-0.116
PWK	0.044	-0.02
H37Rv_KO_CtpC	0.085	0.016
H37Rv_KO_CtpD	-0.333	0.379
H37Rv_KO_Rv1272	1.223	0.963
H37Rv_KO_SugABC	0.041	0.226
H37Rv_KO_MbtN	1.693	0.741
Trans05	1.087	-0.391
macrophage_unactivated	-0.83	-0.489
IL1	-0.222	-1.771
Rapamycin	0.187	-1.071
Tcell	0.182	-0.593
GMCSF	0.121	-0.605
IFNab	0.632	0.073
IFNg	-0.444	-0.69
IFNg_GMCSF1	-0.468	0.368
Rv1432_day32	0.055	0.438
Rv1565c_day32	0.57	0.035
secA2_input	-1.367	-0.099
delta_Rv3594	0.838	0.355
delta_Rv3717	-0.186	-0.279
delta_Rv3811	0.697	0.067
delta_Rv0954	-0.151	0.039
PonA1	-0.492	-0.32
EccD1_KO	0.927	0.247
EspI_KO	1.03	1.223
PE35_KO	1.52	0.315
PPE68_KO	1.369	0.285
glycerol2	2.299	1.883
lignocerate	2.763	2.04
oleate	-0.062	0.608
phosphatidylcholine	2.346	1.756
acetate	3.72	2.287
glucAc	2.122	1.932
Rv0950ko	0.748	0.745
Rv1096ko	-0.461	-0.507
Rv3684ko	-0.196	-0.406
delta_otsA_trehalose	0.21	0.152