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 Rv3251c/rubA:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2140c/TB18.6	(cc=0.4828)	info on Rv2140c/TB18.6
Rv1819c/bacA	(cc=0.4461)	info on Rv1819c/bacA
Rv2613c/-	(cc=0.4176)	info on Rv2613c/-
Rv1473/-	(cc=0.4141)	info on Rv1473/-
Rv0839/-	(cc=0.4065)	info on Rv0839/-
Rv3055/-	(cc=0.394)	info on Rv3055/-
Rv2359/zur	(cc=0.3867)	info on Rv2359/zur
Rv1541c/lprI	(cc=0.3831)	info on Rv1541c/lprI
Rv2409c/-	(cc=0.3808)	info on Rv2409c/-
Rv2599/-	(cc=0.3806)	info on Rv2599/-

Correlation of Rv3251c/rubA with Rv2140c/TB18.6

Normalized LFCs for Rv3251c/rubA:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3251c/rubA	Rv2140c/TB18.6
Fe_supp_jason_reseq	0.575	3.198
low_pH_jason_reseq	-1.574	-0.582
NO_jason_reseq	0.221	-1.273
B6_jason_reseq	-0.698	-0.538
MHCII_jason_reseq	0.698	-0.34
Isoniazid02	-1.745	-1.739
Rifampicin4	0.896	2.101
Ethambutol3	0.805	2.658
Meropenem3	0.703	1.695
Vancomycin16	-0.085	2.159
Rv2680_day32	1.918	-0.459
H37Rv_KO_MarP	0.607	1.3
hypoxia_3wks	-1.128	-2.887
hypoxia_6wks	-0.332	-3.23
glycerol	0.679	1.988
cholesterol	0.205	1.327
AJ	-0.294	-2.513
Bibs02	-1.086	-2.162
Bibs02c	0.555	-0.653
BL6	-0.34	-2.385
BL6a	-0.778	-1.502
BXD01	-0.585	-2.483
BXD010	-1.455	-2.442
BXD011	0.228	-1.803
BXD03	-0.088	-2.578
BXD04	-0.762	-2.358
BXD05	-0.043	-2.31
BXD06	0.239	-2.545
BXD07	-0.343	-2.376
BXD08	0.009	-2.536
BXD09	-0.282	-2.679
CAST	-0.292	-3.415
CCcont	0.639	0.991
DS01	-0.842	-3.343
DS02	-1.292	-4.147
DS04	-0.988	-2.624
DS0c	-0.812	-2.803
GP01	0.614	-1.536
GP02	-1.306	-1.586
GP0c	-1.213	-2.231
NOD	-0.116	-1.149
NZO	0.49	-2.698
PWK	0.287	-2.909
H37Rv_KO_CtpC	1.016	-2.788
H37Rv_KO_CtpD	0.391	-1.878
H37Rv_KO_Rv1272	-0.179	-2.689
H37Rv_KO_SugABC	0.705	-1.28
H37Rv_KO_MbtN	-0.434	-1.022
Trans05	0.032	-2.362
macrophage_unactivated	1.411	0.379
IL1	-0.86	-0.599
Rapamycin	0.0	0.187
Tcell	-0.108	-1.421
GMCSF	-1.019	-1.89
IFNab	-1.04	0.363
IFNg	-2.673	-2.2
IFNg_GMCSF1	0.902	-1.939
Rv1432_day32	0.164	-2.746
Rv1565c_day32	0.466	-2.685
secA2_input	0.412	0.798
delta_Rv3594	0.219	1.646
delta_Rv3717	-0.75	-0.122
delta_Rv3811	0.47	1.688
delta_Rv0954	0.579	0.526
PonA1	-0.223	-2.238
EccD1_KO	1.513	1.75
EspI_KO	1.5	1.423
PE35_KO	1.243	0.901
PPE68_KO	1.881	2.003
glycerol2	0.73	1.808
lignocerate	0.319	-0.812
oleate	-0.214	-0.614
phosphatidylcholine	0.398	-0.324
acetate	-0.03	0.482
glucAc	0.513	0.549
Rv0950ko	0.311	0.47
Rv1096ko	-0.498	-0.084
Rv3684ko	-0.517	-0.888
delta_otsA_trehalose	-1.796	0.045