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 Rv0789c/-

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

	Rv2019/-	Rv0789c/-
Fe_supp_jason_reseq	0.44	-0.073
low_pH_jason_reseq	-0.156	0.284
NO_jason_reseq	-0.013	-1.362
B6_jason_reseq	0.823	-0.395
MHCII_jason_reseq	0.456	0.449
Isoniazid02	0.118	-0.073
Rifampicin4	0.325	-0.815
Ethambutol3	-0.124	-0.519
Meropenem3	0.059	-0.272
Vancomycin16	0.273	-0.167
Rv2680_day32	0.594	0.222
H37Rv_KO_MarP	-0.807	-0.714
hypoxia_3wks	-0.845	-1.328
hypoxia_6wks	0.578	0.23
glycerol	-0.512	-0.873
cholesterol	0.244	-0.682
AJ	-0.373	0.02
Bibs02	-0.021	-0.699
Bibs02c	-0.635	0.018
BL6	-0.386	-1.162
BL6a	-0.093	-0.405
BXD01	-0.498	-0.307
BXD010	0.09	0.104
BXD011	0.606	-1.379
BXD03	-0.532	-0.768
BXD04	-0.494	-0.667
BXD05	0.324	-0.707
BXD06	0.065	-1.847
BXD07	-0.054	-1.23
BXD08	-0.214	-0.68
BXD09	0.063	-0.47
CAST	-0.584	-0.332
CCcont	0.671	-0.383
DS01	0.474	-0.021
DS02	0.517	-0.151
DS04	0.822	1.314
DS0c	-0.702	0.141
GP01	-0.629	-0.133
GP02	-0.134	-1.1
GP0c	0.009	0.0
NOD	0.068	-0.303
NZO	-0.046	1.224
PWK	0.044	-0.246
H37Rv_KO_CtpC	0.085	0.412
H37Rv_KO_CtpD	-0.333	-1.97
H37Rv_KO_Rv1272	1.223	0.069
H37Rv_KO_SugABC	0.041	0.403
H37Rv_KO_MbtN	1.693	-1.769
Trans05	1.087	1.333
macrophage_unactivated	-0.83	0.776
IL1	-0.222	2.658
Rapamycin	0.187	-0.433
Tcell	0.182	0.71
GMCSF	0.121	-1.125
IFNab	0.632	0.744
IFNg	-0.444	-0.091
IFNg_GMCSF1	-0.468	1.279
Rv1432_day32	0.055	1.095
Rv1565c_day32	0.57	0.344
secA2_input	-1.367	-0.434
delta_Rv3594	0.838	-0.889
delta_Rv3717	-0.186	0.228
delta_Rv3811	0.697	-0.772
delta_Rv0954	-0.151	-0.974
PonA1	-0.492	-0.791
EccD1_KO	0.927	1.22
EspI_KO	1.03	0.499
PE35_KO	1.52	1.164
PPE68_KO	1.369	0.803
glycerol2	2.299	3.129
lignocerate	2.763	3.78
oleate	-0.062	0.196
phosphatidylcholine	2.346	2.994
acetate	3.72	3.712
glucAc	2.122	3.388
Rv0950ko	0.748	0.223
Rv1096ko	-0.461	1.252
Rv3684ko	-0.196	0.658
delta_otsA_trehalose	0.21	-1.059