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 Rv2982c/gpdA2:

update plot	correlation	link to info on gene
Rv2313c/-	(cc=0.6103)	info on Rv2313c/-
Rv1148c/-	(cc=0.5292)	info on Rv1148c/-
Rv0843/-	(cc=0.5036)	info on Rv0843/-
Rv0570/nrdZ	(cc=0.5022)	info on Rv0570/nrdZ
Rv3566c/nat	(cc=0.4963)	info on Rv3566c/nat
Rv3329/-	(cc=0.4937)	info on Rv3329/-
Rv1125/-	(cc=0.4704)	info on Rv1125/-
Rv3086/adhD	(cc=0.4536)	info on Rv3086/adhD
Rv1429/-	(cc=0.4286)	info on Rv1429/-
Rv0906/-	(cc=0.4285)	info on Rv0906/-

Correlation of Rv2982c/gpdA2 with Rv1125/-

Normalized LFCs for Rv2982c/gpdA2:
(description and provenance of datasets)

	Rv2982c/gpdA2	Rv1125/-
Fe_supp_jason_reseq	-0.062	-0.448
low_pH_jason_reseq	0.445	0.167
NO_jason_reseq	1.05	-0.428
B6_jason_reseq	1.755	0.929
MHCII_jason_reseq	1.324	1.89
Isoniazid02	-2.513	-1.603
Rifampicin4	0.211	0.43
Ethambutol3	-2.309	-1.75
Meropenem3	-2.13	-1.635
Vancomycin16	-1.263	-0.735
Rv2680_day32	1.046	-0.091
H37Rv_KO_MarP	0.73	0.879
hypoxia_3wks	-0.375	0.443
hypoxia_6wks	0.34	0.34
glycerol	0.022	1.055
cholesterol	0.138	-0.345
AJ	0.284	0.334
Bibs02	-0.408	0.136
Bibs02c	-0.047	0.659
BL6	0.161	0.832
BL6a	-0.535	0.075
BXD01	-0.561	0.274
BXD010	-0.771	-0.274
BXD011	-0.593	-0.272
BXD03	-0.143	-0.424
BXD04	-0.264	0.298
BXD05	-0.263	0.194
BXD06	-0.426	0.124
BXD07	0.16	-0.296
BXD08	-0.04	0.214
BXD09	-0.5	-0.204
CAST	0.472	-0.492
CCcont	-0.704	0.533
DS01	-0.026	1.369
DS02	-0.359	0.685
DS04	0.607	0.214
DS0c	-0.057	1.328
GP01	-0.958	-0.284
GP02	-0.576	-0.635
GP0c	-0.56	-0.342
NOD	0.106	1.092
NZO	0.348	-0.678
PWK	0.45	-0.038
H37Rv_KO_CtpC	-0.289	-0.387
H37Rv_KO_CtpD	-0.849	-1.696
H37Rv_KO_Rv1272	-0.227	0.444
H37Rv_KO_SugABC	-0.714	-0.575
H37Rv_KO_MbtN	-0.662	-1.245
Trans05	-0.127	0.049
macrophage_unactivated	-0.376	0.0
IL1	0.077	0.721
Rapamycin	0.559	0.681
Tcell	0.332	-1.248
GMCSF	0.499	1.281
IFNab	0.106	0.142
IFNg	0.588	0.307
IFNg_GMCSF1	1.433	0.952
Rv1432_day32	-0.52	0.271
Rv1565c_day32	-0.106	-0.398
secA2_input	-0.643	-1.288
delta_Rv3594	0.623	0.698
delta_Rv3717	0.361	0.101
delta_Rv3811	0.706	-0.403
delta_Rv0954	0.424	0.053
PonA1	0.22	0.0
EccD1_KO	0.799	1.411
EspI_KO	0.485	1.104
PE35_KO	0.152	1.129
PPE68_KO	0.166	0.813
glycerol2	5.036	0.113
lignocerate	-0.293	0.704
oleate	-0.537	0.058
phosphatidylcholine	-0.161	0.625
acetate	-0.63	0.555
glucAc	0.31	0.311
Rv0950ko	-0.292	0.793
Rv1096ko	1.053	0.995
Rv3684ko	0.606	0.632
delta_otsA_trehalose	-0.567	-0.147