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 Rv0168/yrbE1B:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0169/mce1A	(cc=0.8245)	info on Rv0169/mce1A
Rv0171/mce1C	(cc=0.8116)	info on Rv0171/mce1C
Rv0172/mce1D	(cc=0.7962)	info on Rv0172/mce1D
Rv0173/lprK	(cc=0.7901)	info on Rv0173/lprK
Rv0174/mce1F	(cc=0.7761)	info on Rv0174/mce1F
Rv0177/-	(cc=0.7528)	info on Rv0177/-
Rv0178/-	(cc=0.7402)	info on Rv0178/-
Rv0167/yrbE1A	(cc=0.7342)	info on Rv0167/yrbE1A
Rv0176/-	(cc=0.7195)	info on Rv0176/-
Rv0175/-	(cc=0.7152)	info on Rv0175/-

Correlation of Rv0168/yrbE1B with Rv0169/mce1A

Normalized LFCs for Rv0168/yrbE1B:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0168/yrbE1B	Rv0169/mce1A
Fe_supp_jason_reseq	0.398	0.674
low_pH_jason_reseq	0.564	0.581
NO_jason_reseq	1.838	2.46
B6_jason_reseq	1.484	0.209
MHCII_jason_reseq	-0.754	-0.879
Isoniazid02	-0.834	-0.501
Rifampicin4	1.392	1.451
Ethambutol3	-0.75	0.444
Meropenem3	1.799	2.361
Vancomycin16	1.409	1.825
Rv2680_day32	1.372	0.351
H37Rv_KO_MarP	0.573	0.457
hypoxia_3wks	1.774	2.173
hypoxia_6wks	1.159	2.222
glycerol	0.233	0.388
cholesterol	3.311	1.052
AJ	0.316	-0.168
Bibs02	-2.281	-2.951
Bibs02c	-3.139	-2.284
BL6	-0.045	0.631
BL6a	-1.406	-1.444
BXD01	-0.088	0.805
BXD010	-0.098	0.846
BXD011	-0.004	0.412
BXD03	0.356	0.827
BXD04	0.64	0.592
BXD05	-0.537	0.512
BXD06	-0.416	0.075
BXD07	-0.119	0.797
BXD08	-0.19	0.301
BXD09	0.405	0.734
CAST	-0.662	-0.766
CCcont	-0.564	-0.006
DS01	-2.563	-2.392
DS02	-1.432	-1.793
DS04	-0.27	-0.783
DS0c	-1.925	-2.292
GP01	-2.017	-1.538
GP02	-1.527	-1.501
GP0c	-0.993	-0.702
NOD	0.905	-0.163
NZO	0.958	1.186
PWK	-1.498	-1.319
H37Rv_KO_CtpC	-1.22	-0.468
H37Rv_KO_CtpD	-0.168	-0.573
H37Rv_KO_Rv1272	-0.83	0.587
H37Rv_KO_SugABC	0.893	1.394
H37Rv_KO_MbtN	-1.316	0.256
Trans05	-0.345	0.501
macrophage_unactivated	0.022	-0.625
IL1	-1.786	-1.48
Rapamycin	-1.636	-1.97
Tcell	-2.027	-1.659
GMCSF	-0.071	0.153
IFNab	0.475	0.133
IFNg	0.371	0.118
IFNg_GMCSF1	-0.17	0.16
Rv1432_day32	1.561	0.408
Rv1565c_day32	-2.834	-1.906
secA2_input	-0.787	-0.794
delta_Rv3594	-0.352	0.233
delta_Rv3717	0.196	0.568
delta_Rv3811	-0.839	-0.098
delta_Rv0954	0.973	0.382
PonA1	0.388	0.272
EccD1_KO	0.96	-0.579
EspI_KO	0.436	-0.613
PE35_KO	-0.575	-0.213
PPE68_KO	-0.41	0.179
glycerol2	-1.575	-0.254
lignocerate	-3.529	-2.656
oleate	-0.639	0.759
phosphatidylcholine	-2.092	-0.725
acetate	0.209	0.658
glucAc	-0.52	0.451
Rv0950ko	-0.115	0.513
Rv1096ko	-0.151	-0.018
Rv3684ko	0.799	0.537
delta_otsA_trehalose	-0.4	0.014