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 Rv1289/-

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

	Rv2019/-	Rv1289/-
Fe_supp_jason_reseq	0.44	0.666
low_pH_jason_reseq	-0.156	-0.099
NO_jason_reseq	-0.013	0.659
B6_jason_reseq	0.823	1.077
MHCII_jason_reseq	0.456	0.6
Isoniazid02	0.118	1.077
Rifampicin4	0.325	0.162
Ethambutol3	-0.124	0.073
Meropenem3	0.059	0.299
Vancomycin16	0.273	0.334
Rv2680_day32	0.594	-1.138
H37Rv_KO_MarP	-0.807	-0.277
hypoxia_3wks	-0.845	-1.013
hypoxia_6wks	0.578	0.0
glycerol	-0.512	-0.54
cholesterol	0.244	0.208
AJ	-0.373	0.024
Bibs02	-0.021	-0.538
Bibs02c	-0.635	0.547
BL6	-0.386	-1.07
BL6a	-0.093	-0.608
BXD01	-0.498	-0.634
BXD010	0.09	0.395
BXD011	0.606	-0.707
BXD03	-0.532	-0.847
BXD04	-0.494	-1.276
BXD05	0.324	0.24
BXD06	0.065	-0.374
BXD07	-0.054	-0.652
BXD08	-0.214	-1.233
BXD09	0.063	-0.962
CAST	-0.584	1.485
CCcont	0.671	-0.213
DS01	0.474	0.441
DS02	0.517	0.551
DS04	0.822	1.06
DS0c	-0.702	0.46
GP01	-0.629	0.242
GP02	-0.134	-0.858
GP0c	0.009	-0.551
NOD	0.068	1.041
NZO	-0.046	-0.192
PWK	0.044	-0.02
H37Rv_KO_CtpC	0.085	1.16
H37Rv_KO_CtpD	-0.333	0.911
H37Rv_KO_Rv1272	1.223	0.718
H37Rv_KO_SugABC	0.041	0.547
H37Rv_KO_MbtN	1.693	-0.184
Trans05	1.087	0.857
macrophage_unactivated	-0.83	0.335
IL1	-0.222	1.05
Rapamycin	0.187	0.055
Tcell	0.182	-0.775
GMCSF	0.121	0.095
IFNab	0.632	0.85
IFNg	-0.444	0.048
IFNg_GMCSF1	-0.468	0.738
Rv1432_day32	0.055	0.129
Rv1565c_day32	0.57	0.0
secA2_input	-1.367	-0.625
delta_Rv3594	0.838	-0.148
delta_Rv3717	-0.186	-0.209
delta_Rv3811	0.697	-0.318
delta_Rv0954	-0.151	-0.423
PonA1	-0.492	-0.57
EccD1_KO	0.927	2.453
EspI_KO	1.03	1.118
PE35_KO	1.52	1.313
PPE68_KO	1.369	1.616
glycerol2	2.299	1.801
lignocerate	2.763	2.489
oleate	-0.062	-0.961
phosphatidylcholine	2.346	2.531
acetate	3.72	2.534
glucAc	2.122	2.382
Rv0950ko	0.748	-0.597
Rv1096ko	-0.461	-1.288
Rv3684ko	-0.196	-0.511
delta_otsA_trehalose	0.21	-0.672