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 Rv3518c/cyp142:

update plot	correlation	link to info on gene
Rv1525/wbbL2	(cc=0.545)	info on Rv1525/wbbL2
Rv3528c/-	(cc=0.4835)	info on Rv3528c/-
Rv0371c/-	(cc=0.4714)	info on Rv0371c/-
Rv1021/-	(cc=0.4629)	info on Rv1021/-
Rv0260c/-	(cc=0.4578)	info on Rv0260c/-
Rv0821c/phoY2	(cc=0.4417)	info on Rv0821c/phoY2
Rv3324c/moaC3	(cc=0.4367)	info on Rv3324c/moaC3
Rv0456B/mazE1	(cc=0.4345)	info on Rv0456B/mazE1
Rv3473c/bpoA	(cc=0.4344)	info on Rv3473c/bpoA
Rv1499/-	(cc=0.4279)	info on Rv1499/-

Correlation of Rv3518c/cyp142 with Rv3324c/moaC3

Normalized LFCs for Rv3518c/cyp142:
(description and provenance of datasets)

	Rv3518c/cyp142	Rv3324c/moaC3
Fe_supp_jason_reseq	1.241	0.051
low_pH_jason_reseq	-0.612	-0.418
NO_jason_reseq	-0.638	-0.323
B6_jason_reseq	0.368	-0.758
MHCII_jason_reseq	0.966	0.782
Isoniazid02	-0.851	-1.71
Rifampicin4	-0.1	0.338
Ethambutol3	-0.392	-0.528
Meropenem3	-0.231	-1.175
Vancomycin16	0.096	-0.464
Rv2680_day32	-0.065	-1.362
H37Rv_KO_MarP	0.549	0.315
hypoxia_3wks	-0.618	0.363
hypoxia_6wks	0.493	0.213
glycerol	0.12	-0.044
cholesterol	0.119	-0.448
AJ	-0.086	-0.089
Bibs02	1.864	0.257
Bibs02c	1.172	0.596
BL6	1.405	0.298
BL6a	2.089	0.54
BXD01	0.52	0.12
BXD010	1.162	0.886
BXD011	0.399	1.142
BXD03	0.987	0.491
BXD04	1.283	1.368
BXD05	0.307	0.377
BXD06	0.776	0.597
BXD07	1.2	0.239
BXD08	1.293	0.187
BXD09	1.156	0.695
CAST	0.055	-0.012
CCcont	1.187	0.667
DS01	-0.209	0.748
DS02	0.454	0.365
DS04	-0.146	0.512
DS0c	-0.566	0.625
GP01	-0.101	0.067
GP02	1.369	1.098
GP0c	0.592	0.265
NOD	1.572	2.005
NZO	0.355	-0.298
PWK	-0.452	0.063
H37Rv_KO_CtpC	0.039	0.317
H37Rv_KO_CtpD	-0.692	-0.339
H37Rv_KO_Rv1272	0.527	0.178
H37Rv_KO_SugABC	0.968	-0.631
H37Rv_KO_MbtN	-0.285	1.006
Trans05	0.477	0.89
macrophage_unactivated	0.114	0.963
IL1	1.13	0.4
Rapamycin	0.347	0.114
Tcell	0.45	0.459
GMCSF	0.557	0.401
IFNab	0.082	-0.076
IFNg	0.807	0.406
IFNg_GMCSF1	0.33	-0.383
Rv1432_day32	0.0	-0.232
Rv1565c_day32	0.952	0.009
secA2_input	0.739	-1.032
delta_Rv3594	-1.101	0.047
delta_Rv3717	-0.522	-0.092
delta_Rv3811	0.54	0.387
delta_Rv0954	-0.93	0.31
PonA1	0.223	0.717
EccD1_KO	-0.204	0.0
EspI_KO	-0.088	-0.508
PE35_KO	0.131	-0.429
PPE68_KO	-0.301	-0.352
glycerol2	0.446	0.572
lignocerate	1.119	0.639
oleate	-1.083	-0.223
phosphatidylcholine	0.716	0.521
acetate	1.232	-0.442
glucAc	0.939	0.068
Rv0950ko	-0.051	0.036
Rv1096ko	0.051	0.0
Rv3684ko	-0.056	-0.37
delta_otsA_trehalose	-0.457	-0.994