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 Rv3922c/-

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

	Rv0184/-	Rv3922c/-
Fe_supp_jason_reseq	-0.481	0.36
low_pH_jason_reseq	0.468	0.763
NO_jason_reseq	0.425	0.41
B6_jason_reseq	-0.988	-0.538
MHCII_jason_reseq	-0.623	-1.397
Isoniazid02	0.269	0.0
Rifampicin4	-0.639	-1.072
Ethambutol3	1.13	-0.146
Meropenem3	1.313	3.541
Vancomycin16	-0.881	-1.475
Rv2680_day32	0.849	-0.6
H37Rv_KO_MarP	0.502	-0.501
hypoxia_3wks	-1.017	-0.961
hypoxia_6wks	-0.666	-1.462
glycerol	1.448	0.41
cholesterol	0.083	-0.112
AJ	-0.176	0.324
Bibs02	1.351	1.519
Bibs02c	0.835	-0.336
BL6	0.719	2.447
BL6a	1.376	1.36
BXD01	1.114	1.838
BXD010	1.26	1.265
BXD011	1.352	1.398
BXD03	0.919	1.078
BXD04	1.05	0.942
BXD05	0.715	0.975
BXD06	1.159	1.016
BXD07	1.212	1.367
BXD08	1.846	1.493
BXD09	0.932	1.018
CAST	2.087	1.396
CCcont	0.487	1.43
DS01	1.234	0.881
DS02	0.996	0.304
DS04	0.436	1.093
DS0c	0.435	1.315
GP01	0.0	1.518
GP02	0.42	0.432
GP0c	0.942	2.402
NOD	0.28	0.314
NZO	0.376	0.0
PWK	0.32	0.142
H37Rv_KO_CtpC	-0.149	0.519
H37Rv_KO_CtpD	-0.793	1.052
H37Rv_KO_Rv1272	0.23	-0.356
H37Rv_KO_SugABC	1.122	1.276
H37Rv_KO_MbtN	1.02	0.487
Trans05	1.461	2.815
macrophage_unactivated	0.562	0.193
IL1	1.382	0.525
Rapamycin	0.902	-1.608
Tcell	1.476	1.404
GMCSF	1.605	1.912
IFNab	0.396	0.535
IFNg	0.35	0.759
IFNg_GMCSF1	1.54	0.556
Rv1432_day32	0.926	1.451
Rv1565c_day32	0.049	-0.49
secA2_input	-0.08	0.916
delta_Rv3594	0.061	0.815
delta_Rv3717	0.099	0.413
delta_Rv3811	0.309	0.045
delta_Rv0954	-1.07	0.391
PonA1	0.27	0.54
EccD1_KO	0.237	-0.743
EspI_KO	-0.034	1.05
PE35_KO	-0.257	-1.257
PPE68_KO	0.483	0.0
glycerol2	-0.132	-1.279
lignocerate	-0.095	-1.583
oleate	0.224	-1.55
phosphatidylcholine	-0.373	-2.158
acetate	-0.239	-0.499
glucAc	0.149	-0.944
Rv0950ko	0.832	-0.286
Rv1096ko	1.028	1.134
Rv3684ko	2.351	0.478
delta_otsA_trehalose	-0.57	0.739