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 Rv1116/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2243/fabD	(cc=0.6223)	info on Rv2243/fabD
Rv1505c/-	(cc=0.6162)	info on Rv1505c/-
Rv3150/nuoF	(cc=0.6069)	info on Rv3150/nuoF
Rv2374c/hrcA	(cc=0.6045)	info on Rv2374c/hrcA
Rv3427c/-	(cc=0.5951)	info on Rv3427c/-
Rv3152/nuoH	(cc=0.5902)	info on Rv3152/nuoH
Rv2452c/-	(cc=0.5897)	info on Rv2452c/-
Rv0188/-	(cc=0.5895)	info on Rv0188/-
Rv1213/glgC	(cc=0.5888)	info on Rv1213/glgC
Rv3153/nuoI	(cc=0.5806)	info on Rv3153/nuoI

Correlation of Rv1116/- with Rv2243/fabD

Normalized LFCs for Rv1116/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1116/-	Rv2243/fabD
Fe_supp_jason_reseq	-0.079	2.543
low_pH_jason_reseq	1.563	-1.419
NO_jason_reseq	-0.937	-0.953
B6_jason_reseq	-0.775	0.763
MHCII_jason_reseq	-2.185	-0.355
Isoniazid02	-0.202	-0.383
Rifampicin4	-0.793	-4.291
Ethambutol3	-0.469	-0.996
Meropenem3	-0.329	-0.981
Vancomycin16	-0.544	-2.918
Rv2680_day32	-3.002	0.0
H37Rv_KO_MarP	0.209	-0.178
hypoxia_3wks	0.881	1.113
hypoxia_6wks	0.315	3.932
glycerol	-2.319	0.184
cholesterol	-1.265	0.253
AJ	-0.866	-0.232
Bibs02	-0.507	0.319
Bibs02c	1.479	1.516
BL6	1.089	3.326
BL6a	3.068	4.84
BXD01	1.975	3.635
BXD010	3.315	2.079
BXD011	2.491	5.29
BXD03	2.737	3.543
BXD04	2.569	2.056
BXD05	2.73	2.211
BXD06	2.452	4.648
BXD07	2.972	5.24
BXD08	2.685	3.916
BXD09	2.084	4.738
CAST	-0.859	-0.23
CCcont	1.588	1.893
DS01	-0.352	-0.236
DS02	-2.497	-0.217
DS04	-1.405	-0.194
DS0c	-1.425	-0.217
GP01	2.097	2.073
GP02	-0.353	1.994
GP0c	2.178	3.153
NOD	-0.623	-0.225
NZO	-2.29	-0.199
PWK	-1.563	-0.196
H37Rv_KO_CtpC	3.593	1.524
H37Rv_KO_CtpD	1.121	0.221
H37Rv_KO_Rv1272	1.482	0.953
H37Rv_KO_SugABC	-0.321	-0.099
H37Rv_KO_MbtN	1.349	-0.103
Trans05	1.761	3.393
macrophage_unactivated	-1.727	-1.884
IL1	-1.216	-1.771
Rapamycin	-0.414	-1.323
Tcell	-1.606	-1.558
GMCSF	-0.38	-0.671
IFNab	-0.46	-0.937
IFNg	-1.646	-0.192
IFNg_GMCSF1	-0.723	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.622	0.0
secA2_input	0.092	-0.916
delta_Rv3594	-2.284	1.363
delta_Rv3717	-0.364	0.272
delta_Rv3811	0.213	-0.378
delta_Rv0954	-1.87	-2.109
PonA1	-3.333	-1.58
EccD1_KO	0.51	0.0
EspI_KO	1.934	-0.787
PE35_KO	0.796	-0.805
PPE68_KO	1.523	1.069
glycerol2	-1.516	0.369
lignocerate	-1.445	0.0
oleate	-0.045	0.537
phosphatidylcholine	-0.403	0.0
acetate	-1.837	0.0
glucAc	-2.853	0.605
Rv0950ko	1.263	0.223
Rv1096ko	0.989	1.016
Rv3684ko	0.095	5.512
delta_otsA_trehalose	0.483	0.0