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 Rv1712/cmk

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

	Rv0184/-	Rv1712/cmk
Fe_supp_jason_reseq	-0.481	-0.458
low_pH_jason_reseq	0.468	3.63
NO_jason_reseq	0.425	2.625
B6_jason_reseq	-0.988	-1.263
MHCII_jason_reseq	-0.623	-0.977
Isoniazid02	0.269	-0.183
Rifampicin4	-0.639	0.0
Ethambutol3	1.13	0.0
Meropenem3	1.313	0.386
Vancomycin16	-0.881	0.0
Rv2680_day32	0.849	1.501
H37Rv_KO_MarP	0.502	-1.081
hypoxia_3wks	-1.017	-1.388
hypoxia_6wks	-0.666	-1.013
glycerol	1.448	0.0
cholesterol	0.083	0.0
AJ	-0.176	0.0
Bibs02	1.351	0.0
Bibs02c	0.835	0.0
BL6	0.719	0.125
BL6a	1.376	1.217
BXD01	1.114	1.953
BXD010	1.26	0.352
BXD011	1.352	1.322
BXD03	0.919	3.024
BXD04	1.05	1.42
BXD05	0.715	2.566
BXD06	1.159	3.239
BXD07	1.212	1.073
BXD08	1.846	1.891
BXD09	0.932	1.798
CAST	2.087	0.0
CCcont	0.487	0.733
DS01	1.234	0.0
DS02	0.996	0.0
DS04	0.436	0.0
DS0c	0.435	0.0
GP01	0.0	0.0
GP02	0.42	0.0
GP0c	0.942	0.0
NOD	0.28	0.0
NZO	0.376	0.0
PWK	0.32	0.0
H37Rv_KO_CtpC	-0.149	0.162
H37Rv_KO_CtpD	-0.793	0.127
H37Rv_KO_Rv1272	0.23	0.598
H37Rv_KO_SugABC	1.122	0.0
H37Rv_KO_MbtN	1.02	1.286
Trans05	1.461	1.077
macrophage_unactivated	0.562	-1.626
IL1	1.382	-0.955
Rapamycin	0.902	0.0
Tcell	1.476	-0.495
GMCSF	1.605	1.001
IFNab	0.396	0.212
IFNg	0.35	-1.376
IFNg_GMCSF1	1.54	0.826
Rv1432_day32	0.926	0.0
Rv1565c_day32	0.049	-0.766
secA2_input	-0.08	1.86
delta_Rv3594	0.061	0.268
delta_Rv3717	0.099	0.677
delta_Rv3811	0.309	-0.07
delta_Rv0954	-1.07	-2.109
PonA1	0.27	-1.324
EccD1_KO	0.237	0.0
EspI_KO	-0.034	-1.668
PE35_KO	-0.257	-0.239
PPE68_KO	0.483	0.0
glycerol2	-0.132	-1.188
lignocerate	-0.095	-1.425
oleate	0.224	-0.614
phosphatidylcholine	-0.373	-1.639
acetate	-0.239	-0.603
glucAc	0.149	-0.78
Rv0950ko	0.832	-0.793
Rv1096ko	1.028	2.223
Rv3684ko	2.351	0.255
delta_otsA_trehalose	-0.57	0.366