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 Rv2674/msrB:

update plot	correlation	link to info on gene
Rv2063/mazE7	(cc=0.5633)	info on Rv2063/mazE7
Rv1596/nadC	(cc=0.5426)	info on Rv1596/nadC
Rv1023/eno	(cc=0.5042)	info on Rv1023/eno
Rv1972/-	(cc=0.4861)	info on Rv1972/-
Rv1551/plsB1	(cc=0.4642)	info on Rv1551/plsB1
Rv1571/-	(cc=0.463)	info on Rv1571/-
Rv0867c/rpfA	(cc=0.4612)	info on Rv0867c/rpfA
Rv2389c/rpfD	(cc=0.4419)	info on Rv2389c/rpfD
Rv1456c/-	(cc=0.4352)	info on Rv1456c/-
Rv1850/ureC	(cc=0.431)	info on Rv1850/ureC

Correlation of Rv2674/msrB with Rv2063/mazE7

Normalized LFCs for Rv2674/msrB:
(description and provenance of datasets)

	Rv2674/msrB	Rv2063/mazE7
Fe_supp_jason_reseq	-0.076	1.13
low_pH_jason_reseq	-1.178	-0.51
NO_jason_reseq	0.121	-1.402
B6_jason_reseq	-1.342	-2.297
MHCII_jason_reseq	-1.309	-2.023
Isoniazid02	0.064	-0.762
Rifampicin4	-0.823	-0.087
Ethambutol3	-0.305	0.406
Meropenem3	1.751	-0.038
Vancomycin16	-0.143	0.241
Rv2680_day32	0.601	-0.131
H37Rv_KO_MarP	-0.834	-3.737
hypoxia_3wks	0.463	0.0
hypoxia_6wks	0.284	0.0
glycerol	0.061	0.0
cholesterol	0.424	0.0
AJ	-0.365	0.0
Bibs02	0.109	0.0
Bibs02c	-0.694	0.0
BL6	-0.164	0.0
BL6a	0.713	0.0
BXD01	0.169	0.0
BXD010	0.095	0.0
BXD011	0.857	0.0
BXD03	0.641	0.0
BXD04	0.152	0.0
BXD05	0.563	0.135
BXD06	0.579	0.0
BXD07	0.722	0.0
BXD08	0.458	0.0
BXD09	0.436	0.0
CAST	0.267	0.0
CCcont	0.402	0.0
DS01	0.323	0.0
DS02	0.52	0.0
DS04	0.416	1.077
DS0c	0.841	0.0
GP01	-0.228	0.548
GP02	-0.429	1.289
GP0c	1.396	2.435
NOD	0.0	0.0
NZO	-0.423	0.0
PWK	0.117	0.0
H37Rv_KO_CtpC	0.522	0.0
H37Rv_KO_CtpD	-1.524	0.127
H37Rv_KO_Rv1272	0.501	0.0
H37Rv_KO_SugABC	0.892	0.718
H37Rv_KO_MbtN	0.538	0.943
Trans05	0.752	0.0
macrophage_unactivated	0.527	0.0
IL1	0.199	0.0
Rapamycin	1.126	0.0
Tcell	0.912	0.0
GMCSF	0.319	0.0
IFNab	1.243	0.417
IFNg	0.029	0.0
IFNg_GMCSF1	0.622	0.0
Rv1432_day32	1.055	1.358
Rv1565c_day32	-0.294	0.0
secA2_input	-0.977	-1.199
delta_Rv3594	0.344	-0.349
delta_Rv3717	-0.323	-0.692
delta_Rv3811	-0.269	-3.028
delta_Rv0954	0.58	-1.16
PonA1	-0.057	-0.042
EccD1_KO	1.529	3.743
EspI_KO	2.096	3.149
PE35_KO	0.63	3.22
PPE68_KO	1.2	2.451
glycerol2	0.221	0.0
lignocerate	-0.194	0.0
oleate	0.023	0.196
phosphatidylcholine	0.129	0.0
acetate	-0.279	0.0
glucAc	-0.501	0.0
Rv0950ko	-0.127	1.616
Rv1096ko	-0.528	-0.706
Rv3684ko	-0.773	-1.359
delta_otsA_trehalose	0.698	0.0