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 Rv2237/-

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

	Rv2019/-	Rv2237/-
Fe_supp_jason_reseq	0.44	0.23
low_pH_jason_reseq	-0.156	-0.676
NO_jason_reseq	-0.013	-0.302
B6_jason_reseq	0.823	-0.548
MHCII_jason_reseq	0.456	0.053
Isoniazid02	0.118	0.397
Rifampicin4	0.325	-0.674
Ethambutol3	-0.124	-0.32
Meropenem3	0.059	-0.231
Vancomycin16	0.273	-0.064
Rv2680_day32	0.594	0.594
H37Rv_KO_MarP	-0.807	0.254
hypoxia_3wks	-0.845	-0.762
hypoxia_6wks	0.578	-0.814
glycerol	-0.512	0.12
cholesterol	0.244	0.447
AJ	-0.373	0.235
Bibs02	-0.021	0.013
Bibs02c	-0.635	-0.52
BL6	-0.386	0.847
BL6a	-0.093	0.201
BXD01	-0.498	-0.443
BXD010	0.09	0.241
BXD011	0.606	0.53
BXD03	-0.532	-0.725
BXD04	-0.494	-0.369
BXD05	0.324	0.165
BXD06	0.065	0.284
BXD07	-0.054	-0.399
BXD08	-0.214	-0.084
BXD09	0.063	0.228
CAST	-0.584	-0.464
CCcont	0.671	1.023
DS01	0.474	0.399
DS02	0.517	1.096
DS04	0.822	0.45
DS0c	-0.702	0.129
GP01	-0.629	0.95
GP02	-0.134	-0.93
GP0c	0.009	0.356
NOD	0.068	-0.371
NZO	-0.046	0.35
PWK	0.044	-0.625
H37Rv_KO_CtpC	0.085	-0.013
H37Rv_KO_CtpD	-0.333	-0.315
H37Rv_KO_Rv1272	1.223	-0.297
H37Rv_KO_SugABC	0.041	0.422
H37Rv_KO_MbtN	1.693	0.656
Trans05	1.087	0.02
macrophage_unactivated	-0.83	0.076
IL1	-0.222	0.24
Rapamycin	0.187	-0.11
Tcell	0.182	0.339
GMCSF	0.121	-0.261
IFNab	0.632	0.0
IFNg	-0.444	0.644
IFNg_GMCSF1	-0.468	0.628
Rv1432_day32	0.055	-0.01
Rv1565c_day32	0.57	-0.479
secA2_input	-1.367	0.252
delta_Rv3594	0.838	1.153
delta_Rv3717	-0.186	1.364
delta_Rv3811	0.697	0.772
delta_Rv0954	-0.151	0.16
PonA1	-0.492	0.84
EccD1_KO	0.927	0.53
EspI_KO	1.03	0.91
PE35_KO	1.52	0.858
PPE68_KO	1.369	0.733
glycerol2	2.299	1.88
lignocerate	2.763	2.527
oleate	-0.062	-1.276
phosphatidylcholine	2.346	2.426
acetate	3.72	2.72
glucAc	2.122	2.503
Rv0950ko	0.748	0.0
Rv1096ko	-0.461	-0.078
Rv3684ko	-0.196	-0.819
delta_otsA_trehalose	0.21	-0.569