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 Rv3231c/-:

update plot	correlation	link to info on gene
Rv3767c/-	(cc=0.4502)	info on Rv3767c/-
Rv3033/-	(cc=0.4488)	info on Rv3033/-
Rv2127/ansP1	(cc=0.4317)	info on Rv2127/ansP1
Rv2389c/rpfD	(cc=0.4294)	info on Rv2389c/rpfD
Rv2113/-	(cc=0.4104)	info on Rv2113/-
Rv1875/-	(cc=0.4025)	info on Rv1875/-
Rv0251c/hsp	(cc=0.3941)	info on Rv0251c/hsp
Rv3685c/cyp137	(cc=0.3894)	info on Rv3685c/cyp137
Rv2129c/-	(cc=0.3867)	info on Rv2129c/-
Rv3390/lpqD	(cc=0.3861)	info on Rv3390/lpqD

Correlation of Rv3231c/- with Rv3685c/cyp137

Normalized LFCs for Rv3231c/-:
(description and provenance of datasets)

	Rv3231c/-	Rv3685c/cyp137
Fe_supp_jason_reseq	-0.062	0.698
low_pH_jason_reseq	-1.261	0.064
NO_jason_reseq	-1.347	-0.748
B6_jason_reseq	-0.766	-1.116
MHCII_jason_reseq	-0.773	-0.182
Isoniazid02	0.153	-0.448
Rifampicin4	-0.016	-0.501
Ethambutol3	0.229	-0.095
Meropenem3	0.948	0.834
Vancomycin16	0.22	-0.207
Rv2680_day32	0.878	0.114
H37Rv_KO_MarP	0.121	0.016
hypoxia_3wks	0.0	0.052
hypoxia_6wks	-1.213	-0.278
glycerol	-0.5	-1.011
cholesterol	-0.921	-0.214
AJ	-0.16	-0.012
Bibs02	0.698	-0.193
Bibs02c	-0.45	0.108
BL6	0.271	-0.288
BL6a	-0.415	0.375
BXD01	-0.374	0.119
BXD010	-0.523	0.117
BXD011	0.664	0.375
BXD03	0.438	0.784
BXD04	1.026	-0.237
BXD05	0.125	0.51
BXD06	0.186	0.062
BXD07	-0.198	0.412
BXD08	0.316	0.861
BXD09	0.137	0.162
CAST	-0.072	-0.34
CCcont	-0.727	0.328
DS01	-0.775	0.618
DS02	0.109	0.55
DS04	0.606	0.763
DS0c	0.201	1.057
GP01	-1.246	1.168
GP02	-1.696	-0.431
GP0c	-0.365	-0.504
NOD	-1.022	-0.459
NZO	-1.072	-0.308
PWK	-0.644	0.111
H37Rv_KO_CtpC	0.857	-0.24
H37Rv_KO_CtpD	0.419	0.474
H37Rv_KO_Rv1272	1.227	1.181
H37Rv_KO_SugABC	0.385	0.192
H37Rv_KO_MbtN	-0.608	-0.115
Trans05	0.957	0.218
macrophage_unactivated	1.351	0.96
IL1	0.801	1.056
Rapamycin	1.096	1.252
Tcell	-0.71	-0.818
GMCSF	1.143	1.302
IFNab	0.732	1.566
IFNg	0.615	1.392
IFNg_GMCSF1	0.248	1.144
Rv1432_day32	2.394	0.37
Rv1565c_day32	0.723	-0.325
secA2_input	0.828	-0.615
delta_Rv3594	1.06	0.973
delta_Rv3717	-0.286	0.482
delta_Rv3811	0.729	1.108
delta_Rv0954	0.213	0.486
PonA1	1.182	0.919
EccD1_KO	-0.506	-0.289
EspI_KO	0.311	0.473
PE35_KO	-0.493	-0.193
PPE68_KO	-0.928	0.016
glycerol2	0.531	0.789
lignocerate	-0.245	0.822
oleate	1.713	0.873
phosphatidylcholine	0.352	0.724
acetate	-0.048	-0.066
glucAc	-1.524	-0.07
Rv0950ko	-0.452	0.262
Rv1096ko	0.347	-0.597
Rv3684ko	0.265	1.091
delta_otsA_trehalose	2.083	-0.887