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 Rv0821c/phoY2

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

	Rv0184/-	Rv0821c/phoY2
Fe_supp_jason_reseq	-0.481	-0.185
low_pH_jason_reseq	0.468	0.641
NO_jason_reseq	0.425	-0.937
B6_jason_reseq	-0.988	0.493
MHCII_jason_reseq	-0.623	-0.554
Isoniazid02	0.269	-2.653
Rifampicin4	-0.639	-1.267
Ethambutol3	1.13	-1.018
Meropenem3	1.313	-0.412
Vancomycin16	-0.881	-0.281
Rv2680_day32	0.849	1.524
H37Rv_KO_MarP	0.502	-1.04
hypoxia_3wks	-1.017	-6.0
hypoxia_6wks	-0.666	-5.003
glycerol	1.448	-0.55
cholesterol	0.083	0.091
AJ	-0.176	-0.983
Bibs02	1.351	-0.658
Bibs02c	0.835	0.258
BL6	0.719	1.192
BL6a	1.376	1.65
BXD01	1.114	1.432
BXD010	1.26	2.526
BXD011	1.352	1.606
BXD03	0.919	1.981
BXD04	1.05	2.825
BXD05	0.715	2.21
BXD06	1.159	2.552
BXD07	1.212	1.893
BXD08	1.846	1.546
BXD09	0.932	2.406
CAST	2.087	1.39
CCcont	0.487	1.214
DS01	1.234	-0.388
DS02	0.996	0.808
DS04	0.436	0.083
DS0c	0.435	0.823
GP01	0.0	1.488
GP02	0.42	1.192
GP0c	0.942	0.422
NOD	0.28	-0.342
NZO	0.376	-1.878
PWK	0.32	-0.452
H37Rv_KO_CtpC	-0.149	0.93
H37Rv_KO_CtpD	-0.793	-0.071
H37Rv_KO_Rv1272	0.23	1.838
H37Rv_KO_SugABC	1.122	0.178
H37Rv_KO_MbtN	1.02	-0.388
Trans05	1.461	1.268
macrophage_unactivated	0.562	-0.748
IL1	1.382	0.264
Rapamycin	0.902	-1.307
Tcell	1.476	0.248
GMCSF	1.605	1.861
IFNab	0.396	0.257
IFNg	0.35	2.261
IFNg_GMCSF1	1.54	2.231
Rv1432_day32	0.926	1.763
Rv1565c_day32	0.049	-0.25
secA2_input	-0.08	1.34
delta_Rv3594	0.061	-0.422
delta_Rv3717	0.099	0.092
delta_Rv3811	0.309	-0.294
delta_Rv0954	-1.07	-2.771
PonA1	0.27	-2.17
EccD1_KO	0.237	-1.177
EspI_KO	-0.034	-2.053
PE35_KO	-0.257	-1.269
PPE68_KO	0.483	-2.348
glycerol2	-0.132	0.102
lignocerate	-0.095	0.6
oleate	0.224	-1.019
phosphatidylcholine	-0.373	0.045
acetate	-0.239	0.677
glucAc	0.149	0.533
Rv0950ko	0.832	-1.342
Rv1096ko	1.028	0.199
Rv3684ko	2.351	0.514
delta_otsA_trehalose	-0.57	0.35