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 Rv0665/vapC8:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0373c/-	(cc=0.4398)	info on Rv0373c/-
Rv3894c/eccC2	(cc=0.4224)	info on Rv3894c/eccC2
Rv1675c/cmr	(cc=0.4013)	info on Rv1675c/cmr
Rv1458c/-	(cc=0.4002)	info on Rv1458c/-
Rv3658c/-	(cc=0.3982)	info on Rv3658c/-
Rv0600c/-	(cc=0.3913)	info on Rv0600c/-
Rv3483c/-	(cc=0.3862)	info on Rv3483c/-
Rv1021/-	(cc=0.3767)	info on Rv1021/-
Rv0338c/-	(cc=0.375)	info on Rv0338c/-
Rv3844/-	(cc=0.3734)	info on Rv3844/-

Correlation of Rv0665/vapC8 with Rv0373c/-

Normalized LFCs for Rv0665/vapC8:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0665/vapC8	Rv0373c/-
Fe_supp_jason_reseq	1.405	-0.676
low_pH_jason_reseq	0.33	0.775
NO_jason_reseq	0.557	0.656
B6_jason_reseq	-0.527	-0.535
MHCII_jason_reseq	0.266	-0.119
Isoniazid02	-0.578	-0.31
Rifampicin4	-1.66	-0.276
Ethambutol3	-0.597	-0.231
Meropenem3	2.589	1.324
Vancomycin16	0.451	-0.162
Rv2680_day32	0.907	0.836
H37Rv_KO_MarP	0.487	-0.059
hypoxia_3wks	-0.303	0.307
hypoxia_6wks	-0.023	-0.054
glycerol	-1.404	0.391
cholesterol	3.47	5.178
AJ	0.0	-0.261
Bibs02	-0.289	0.126
Bibs02c	-1.578	0.611
BL6	1.115	0.106
BL6a	-0.452	0.0
BXD01	0.122	0.213
BXD010	1.019	0.651
BXD011	0.269	0.319
BXD03	0.487	-0.352
BXD04	-0.013	-0.163
BXD05	0.274	0.714
BXD06	0.844	-0.098
BXD07	0.712	-0.269
BXD08	0.567	-0.149
BXD09	0.308	-0.158
CAST	-0.138	0.195
CCcont	1.188	0.151
DS01	-0.512	-0.086
DS02	0.46	-0.039
DS04	-0.832	0.067
DS0c	0.544	0.633
GP01	1.181	0.017
GP02	1.351	1.31
GP0c	0.189	0.543
NOD	-0.742	0.19
NZO	-1.241	0.069
PWK	-0.675	0.82
H37Rv_KO_CtpC	-0.352	-0.577
H37Rv_KO_CtpD	0.037	0.559
H37Rv_KO_Rv1272	-0.735	0.252
H37Rv_KO_SugABC	-1.967	0.471
H37Rv_KO_MbtN	0.123	-0.502
Trans05	0.156	0.515
macrophage_unactivated	-0.357	0.357
IL1	0.537	-0.27
Rapamycin	1.691	0.512
Tcell	0.189	-0.196
GMCSF	-0.135	0.298
IFNab	0.457	0.175
IFNg	0.543	0.446
IFNg_GMCSF1	0.839	-0.386
Rv1432_day32	-3.533	-0.505
Rv1565c_day32	0.813	0.58
secA2_input	0.953	-0.348
delta_Rv3594	-2.002	0.567
delta_Rv3717	-1.209	0.0
delta_Rv3811	-0.364	0.0
delta_Rv0954	0.084	-0.168
PonA1	1.383	-0.422
EccD1_KO	-2.223	-0.253
EspI_KO	-0.984	-0.451
PE35_KO	-1.561	-0.648
PPE68_KO	-1.219	-0.573
glycerol2	-0.517	-0.171
lignocerate	-0.138	-0.149
oleate	-0.798	-0.085
phosphatidylcholine	-0.478	-0.028
acetate	-0.111	0.304
glucAc	0.475	0.059
Rv0950ko	-0.769	-0.338
Rv1096ko	-0.452	0.374
Rv3684ko	0.131	0.468
delta_otsA_trehalose	-0.315	-1.609