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 Rv2119/-

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

	Rv2019/-	Rv2119/-
Fe_supp_jason_reseq	0.44	0.362
low_pH_jason_reseq	-0.156	-0.837
NO_jason_reseq	-0.013	0.16
B6_jason_reseq	0.823	0.739
MHCII_jason_reseq	0.456	0.235
Isoniazid02	0.118	-0.028
Rifampicin4	0.325	0.176
Ethambutol3	-0.124	-0.083
Meropenem3	0.059	-0.787
Vancomycin16	0.273	-0.024
Rv2680_day32	0.594	-0.497
H37Rv_KO_MarP	-0.807	-0.12
hypoxia_3wks	-0.845	-0.774
hypoxia_6wks	0.578	0.236
glycerol	-0.512	0.155
cholesterol	0.244	-0.227
AJ	-0.373	0.034
Bibs02	-0.021	-0.498
Bibs02c	-0.635	-0.629
BL6	-0.386	0.572
BL6a	-0.093	-0.133
BXD01	-0.498	-0.109
BXD010	0.09	0.182
BXD011	0.606	0.14
BXD03	-0.532	0.573
BXD04	-0.494	0.288
BXD05	0.324	0.139
BXD06	0.065	0.231
BXD07	-0.054	0.171
BXD08	-0.214	0.564
BXD09	0.063	0.031
CAST	-0.584	-0.379
CCcont	0.671	0.357
DS01	0.474	0.38
DS02	0.517	-0.096
DS04	0.822	0.042
DS0c	-0.702	0.349
GP01	-0.629	-0.26
GP02	-0.134	-0.018
GP0c	0.009	-0.33
NOD	0.068	-0.117
NZO	-0.046	-0.029
PWK	0.044	-0.072
H37Rv_KO_CtpC	0.085	0.0
H37Rv_KO_CtpD	-0.333	0.481
H37Rv_KO_Rv1272	1.223	-0.479
H37Rv_KO_SugABC	0.041	0.457
H37Rv_KO_MbtN	1.693	0.252
Trans05	1.087	-0.54
macrophage_unactivated	-0.83	0.069
IL1	-0.222	-0.75
Rapamycin	0.187	-0.672
Tcell	0.182	0.701
GMCSF	0.121	0.383
IFNab	0.632	-0.686
IFNg	-0.444	-0.607
IFNg_GMCSF1	-0.468	-1.046
Rv1432_day32	0.055	-0.282
Rv1565c_day32	0.57	-0.158
secA2_input	-1.367	-0.698
delta_Rv3594	0.838	-0.259
delta_Rv3717	-0.186	-0.293
delta_Rv3811	0.697	-0.085
delta_Rv0954	-0.151	-0.274
PonA1	-0.492	-0.171
EccD1_KO	0.927	0.559
EspI_KO	1.03	0.0
PE35_KO	1.52	0.831
PPE68_KO	1.369	0.973
glycerol2	2.299	0.874
lignocerate	2.763	0.997
oleate	-0.062	-0.147
phosphatidylcholine	2.346	0.856
acetate	3.72	1.839
glucAc	2.122	1.391
Rv0950ko	0.748	-0.154
Rv1096ko	-0.461	-0.311
Rv3684ko	-0.196	-0.337
delta_otsA_trehalose	0.21	-0.682