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 Rv0805/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3278c/-	(cc=0.6386)	info on Rv3278c/-
Rv2398c/cysW	(cc=0.6369)	info on Rv2398c/cysW
Rv3152/nuoH	(cc=0.624)	info on Rv3152/nuoH
Rv3153/nuoI	(cc=0.624)	info on Rv3153/nuoI
Rv2430c/PPE41	(cc=0.6203)	info on Rv2430c/PPE41
Rv2793c/truB	(cc=0.6125)	info on Rv2793c/truB
Rv0055/rpsR1	(cc=0.6088)	info on Rv0055/rpsR1
Rv3157/nuoM	(cc=0.6042)	info on Rv3157/nuoM
Rv2567/-	(cc=0.5846)	info on Rv2567/-
Rv3567c/hsaB	(cc=0.5824)	info on Rv3567c/hsaB

Correlation of Rv0805/- with Rv3278c/-

Normalized LFCs for Rv0805/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0805/-	Rv3278c/-
Fe_supp_jason_reseq	-0.609	1.468
low_pH_jason_reseq	2.615	0.462
NO_jason_reseq	-3.686	0.307
B6_jason_reseq	-1.743	-0.034
MHCII_jason_reseq	-3.887	-0.278
Isoniazid02	1.139	1.231
Rifampicin4	-2.534	-0.417
Ethambutol3	-0.993	-1.301
Meropenem3	-0.847	0.45
Vancomycin16	-0.034	-0.117
Rv2680_day32	1.826	-0.947
H37Rv_KO_MarP	-1.515	-0.313
hypoxia_3wks	-0.215	-0.08
hypoxia_6wks	-2.249	-0.944
glycerol	1.701	0.089
cholesterol	-0.676	0.435
AJ	2.04	2.054
Bibs02	-0.159	-0.86
Bibs02c	1.082	0.405
BL6	0.439	1.231
BL6a	3.122	1.83
BXD01	6.0	1.482
BXD010	3.308	2.103
BXD011	2.293	1.654
BXD03	3.901	2.582
BXD04	5.495	2.541
BXD05	2.33	2.114
BXD06	4.573	2.357
BXD07	3.297	1.526
BXD08	2.623	1.779
BXD09	3.807	1.464
CAST	1.468	1.351
CCcont	3.702	2.094
DS01	2.962	0.814
DS02	1.011	0.603
DS04	0.5	1.221
DS0c	3.685	1.216
GP01	-0.946	-0.537
GP02	-0.568	1.062
GP0c	-1.245	-0.642
NOD	0.983	1.808
NZO	2.932	1.519
PWK	-0.261	3.493
H37Rv_KO_CtpC	-0.758	-0.385
H37Rv_KO_CtpD	1.382	0.074
H37Rv_KO_Rv1272	0.454	1.648
H37Rv_KO_SugABC	0.041	0.555
H37Rv_KO_MbtN	0.809	0.605
Trans05	1.482	1.446
macrophage_unactivated	0.884	-0.426
IL1	-2.669	-1.883
Rapamycin	-0.5	-1.544
Tcell	-1.352	-0.544
GMCSF	-1.096	-0.943
IFNab	0.302	-0.928
IFNg	-2.157	0.182
IFNg_GMCSF1	-1.524	0.848
Rv1432_day32	-1.036	0.08
Rv1565c_day32	-1.848	-0.218
secA2_input	-0.479	-0.229
delta_Rv3594	-2.756	-0.714
delta_Rv3717	-4.43	-0.904
delta_Rv3811	-3.096	-0.998
delta_Rv0954	-1.676	-1.974
PonA1	-0.617	-1.813
EccD1_KO	-1.46	-0.332
EspI_KO	-1.155	-0.154
PE35_KO	0.589	-0.239
PPE68_KO	-0.211	-0.262
glycerol2	-0.916	-0.343
lignocerate	-0.23	1.15
oleate	1.015	-1.109
phosphatidylcholine	-1.752	0.64
acetate	0.121	0.602
glucAc	-0.146	0.61
Rv0950ko	0.187	-0.256
Rv1096ko	-1.004	0.0
Rv3684ko	-0.298	0.059
delta_otsA_trehalose	1.785	-0.945