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 Rv0184/-:

update plot	correlation	link to info on gene
Rv3922c/-	(cc=0.5587)	info on Rv3922c/-
Rv3770B/-	(cc=0.5035)	info on Rv3770B/-
Rv0309/-	(cc=0.4897)	info on Rv0309/-
Rv0821c/phoY2	(cc=0.4753)	info on Rv0821c/phoY2
Rv2179c/-	(cc=0.4613)	info on Rv2179c/-
Rv0905/echA6	(cc=0.4519)	info on Rv0905/echA6
Rv2731/-	(cc=0.4471)	info on Rv2731/-
Rv1712/cmk	(cc=0.4354)	info on Rv1712/cmk
Rv0179c/lprO	(cc=0.4326)	info on Rv0179c/lprO
Rv3719/-	(cc=0.4322)	info on Rv3719/-

Correlation of Rv0184/- with Rv3719/-

Normalized LFCs for Rv0184/-:
(description and provenance of datasets)

	Rv0184/-	Rv3719/-
Fe_supp_jason_reseq	-0.481	0.281
low_pH_jason_reseq	0.468	-1.031
NO_jason_reseq	0.425	2.714
B6_jason_reseq	-0.988	0.779
MHCII_jason_reseq	-0.623	-0.513
Isoniazid02	0.269	0.111
Rifampicin4	-0.639	-2.97
Ethambutol3	1.13	0.66
Meropenem3	1.313	-0.22
Vancomycin16	-0.881	-1.045
Rv2680_day32	0.849	-0.239
H37Rv_KO_MarP	0.502	-1.218
hypoxia_3wks	-1.017	-4.685
hypoxia_6wks	-0.666	-2.76
glycerol	1.448	-1.596
cholesterol	0.083	-0.598
AJ	-0.176	-0.923
Bibs02	1.351	0.221
Bibs02c	0.835	0.13
BL6	0.719	0.4
BL6a	1.376	1.538
BXD01	1.114	1.149
BXD010	1.26	1.367
BXD011	1.352	2.597
BXD03	0.919	0.935
BXD04	1.05	1.859
BXD05	0.715	1.535
BXD06	1.159	1.736
BXD07	1.212	1.765
BXD08	1.846	1.498
BXD09	0.932	1.531
CAST	2.087	-0.879
CCcont	0.487	1.196
DS01	1.234	-0.471
DS02	0.996	0.323
DS04	0.436	-0.569
DS0c	0.435	-0.762
GP01	0.0	1.224
GP02	0.42	0.272
GP0c	0.942	1.206
NOD	0.28	-0.789
NZO	0.376	-0.824
PWK	0.32	0.398
H37Rv_KO_CtpC	-0.149	0.052
H37Rv_KO_CtpD	-0.793	-0.252
H37Rv_KO_Rv1272	0.23	-0.015
H37Rv_KO_SugABC	1.122	0.301
H37Rv_KO_MbtN	1.02	0.321
Trans05	1.461	0.974
macrophage_unactivated	0.562	-0.357
IL1	1.382	0.549
Rapamycin	0.902	0.675
Tcell	1.476	-0.13
GMCSF	1.605	-0.269
IFNab	0.396	-0.245
IFNg	0.35	-2.32
IFNg_GMCSF1	1.54	-1.2
Rv1432_day32	0.926	-1.248
Rv1565c_day32	0.049	-2.203
secA2_input	-0.08	0.542
delta_Rv3594	0.061	-0.566
delta_Rv3717	0.099	0.121
delta_Rv3811	0.309	-0.604
delta_Rv0954	-1.07	-0.516
PonA1	0.27	-0.944
EccD1_KO	0.237	-0.799
EspI_KO	-0.034	-0.761
PE35_KO	-0.257	-0.16
PPE68_KO	0.483	-0.65
glycerol2	-0.132	-0.083
lignocerate	-0.095	-0.307
oleate	0.224	-1.337
phosphatidylcholine	-0.373	-0.779
acetate	-0.239	-0.199
glucAc	0.149	0.0
Rv0950ko	0.832	0.914
Rv1096ko	1.028	0.54
Rv3684ko	2.351	1.533
delta_otsA_trehalose	-0.57	1.228