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 Rv3697c/vapC48:

update plot	correlation	link to info on gene
Rv2841c/nusA	(cc=0.6194)	info on Rv2841c/nusA
Rv3749c/-	(cc=0.6188)	info on Rv3749c/-
Rv3142c/-	(cc=0.6004)	info on Rv3142c/-
Rv0515/-	(cc=0.588)	info on Rv0515/-
Rv2647/-	(cc=0.5784)	info on Rv2647/-
Rv3018c/PPE46	(cc=0.575)	info on Rv3018c/PPE46
Rv1913/-	(cc=0.5661)	info on Rv1913/-
Rv2808/-	(cc=0.5575)	info on Rv2808/-
Rv2105/-	(cc=0.5507)	info on Rv2105/-
Rv0336/-	(cc=0.536)	info on Rv0336/-

Correlation of Rv3697c/vapC48 with Rv2808/-

Normalized LFCs for Rv3697c/vapC48:
(description and provenance of datasets)

	Rv3697c/vapC48	Rv2808/-
Fe_supp_jason_reseq	1.004	0.766
low_pH_jason_reseq	0.248	-0.124
NO_jason_reseq	0.257	0.69
B6_jason_reseq	0.432	2.801
MHCII_jason_reseq	0.625	1.22
Isoniazid02	0.127	0.0
Rifampicin4	0.986	0.791
Ethambutol3	0.259	0.427
Meropenem3	0.623	0.444
Vancomycin16	0.849	0.775
Rv2680_day32	-0.608	-3.002
H37Rv_KO_MarP	0.141	-0.114
hypoxia_3wks	-0.187	-0.825
hypoxia_6wks	0.599	0.023
glycerol	-1.059	-0.066
cholesterol	-0.18	0.379
AJ	1.141	1.128
Bibs02	0.148	0.642
Bibs02c	1.023	-0.103
BL6	0.43	-0.255
BL6a	0.946	-0.502
BXD01	1.006	0.222
BXD010	0.63	0.472
BXD011	0.497	0.719
BXD03	0.265	0.266
BXD04	0.173	-0.061
BXD05	0.037	-0.851
BXD06	0.352	0.246
BXD07	0.319	0.138
BXD08	0.723	0.66
BXD09	0.615	-0.314
CAST	0.929	1.565
CCcont	0.578	0.244
DS01	0.7	0.589
DS02	1.311	1.175
DS04	0.926	0.822
DS0c	1.073	0.848
GP01	0.32	-0.654
GP02	1.123	-0.764
GP0c	0.655	-0.577
NOD	1.15	2.481
NZO	0.351	1.097
PWK	1.223	0.334
H37Rv_KO_CtpC	1.453	0.976
H37Rv_KO_CtpD	0.915	-1.163
H37Rv_KO_Rv1272	-0.06	0.045
H37Rv_KO_SugABC	1.48	-0.929
H37Rv_KO_MbtN	0.337	0.264
Trans05	1.053	-1.679
macrophage_unactivated	-0.675	-0.259
IL1	-1.053	-3.168
Rapamycin	-1.789	-0.948
Tcell	-0.534	-0.404
GMCSF	-1.595	-1.853
IFNab	-0.98	-1.808
IFNg	-0.676	-2.638
IFNg_GMCSF1	-1.254	-1.345
Rv1432_day32	-1.395	-1.675
Rv1565c_day32	0.684	-1.139
secA2_input	-0.368	-0.504
delta_Rv3594	0.021	-0.066
delta_Rv3717	-0.279	-1.057
delta_Rv3811	-0.042	-1.034
delta_Rv0954	-0.239	-1.495
PonA1	-0.059	-2.308
EccD1_KO	-0.576	-0.927
EspI_KO	0.02	-0.091
PE35_KO	-0.257	0.359
PPE68_KO	-0.307	-0.544
glycerol2	0.743	-0.433
lignocerate	1.221	0.145
oleate	0.95	-0.265
phosphatidylcholine	1.308	0.277
acetate	0.329	-0.382
glucAc	0.432	0.088
Rv0950ko	1.077	0.084
Rv1096ko	0.033	-0.262
Rv3684ko	0.701	-0.481
delta_otsA_trehalose	-0.143	-2.072