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 Rv3433c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0038/-	(cc=0.5783)	info on Rv0038/-
Rv0407/fgd1	(cc=0.5711)	info on Rv0407/fgd1
Rv3223c/sigH	(cc=0.5645)	info on Rv3223c/sigH
Rv1069c/-	(cc=0.535)	info on Rv1069c/-
Rv1638/uvrA	(cc=0.519)	info on Rv1638/uvrA
Rv1112/-	(cc=0.4942)	info on Rv1112/-
Rv3133c/devR	(cc=0.4772)	info on Rv3133c/devR
Rv3755c/-	(cc=0.472)	info on Rv3755c/-
Rv3068c/pgmA	(cc=0.4632)	info on Rv3068c/pgmA
Rv1408/rpe	(cc=0.4629)	info on Rv1408/rpe

Correlation of Rv3433c/- with Rv0038/-

Normalized LFCs for Rv3433c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3433c/-	Rv0038/-
Fe_supp_jason_reseq	1.579	0.639
low_pH_jason_reseq	-1.367	-2.28
NO_jason_reseq	-2.945	-1.809
B6_jason_reseq	-1.446	-0.172
MHCII_jason_reseq	-0.497	0.482
Isoniazid02	2.231	1.078
Rifampicin4	1.083	-0.125
Ethambutol3	0.672	1.394
Meropenem3	0.334	0.518
Vancomycin16	0.273	0.0
Rv2680_day32	-0.375	0.349
H37Rv_KO_MarP	0.945	-0.707
hypoxia_3wks	-4.243	-0.67
hypoxia_6wks	-3.926	-0.883
glycerol	0.513	0.914
cholesterol	1.221	1.171
AJ	-0.086	-0.745
Bibs02	0.662	0.525
Bibs02c	0.411	1.638
BL6	-0.303	-1.116
BL6a	0.267	0.914
BXD01	-0.149	-0.304
BXD010	-0.566	-0.165
BXD011	0.0	-0.985
BXD03	-0.525	-1.083
BXD04	0.044	-1.363
BXD05	-0.595	-0.28
BXD06	-0.386	-0.323
BXD07	-0.612	-0.975
BXD08	-0.322	-0.835
BXD09	-0.34	-0.558
CAST	-1.753	-2.129
CCcont	2.317	1.46
DS01	-0.683	1.406
DS02	-1.498	-0.232
DS04	-0.301	0.887
DS0c	0.996	1.397
GP01	0.562	-0.027
GP02	-0.698	-0.783
GP0c	0.437	0.109
NOD	-1.119	-1.302
NZO	-1.114	-0.198
PWK	0.136	-1.689
H37Rv_KO_CtpC	-1.01	-1.101
H37Rv_KO_CtpD	0.64	-0.052
H37Rv_KO_Rv1272	1.458	0.323
H37Rv_KO_SugABC	-0.24	-0.282
H37Rv_KO_MbtN	0.689	0.28
Trans05	-0.577	-1.208
macrophage_unactivated	0.83	-0.287
IL1	-1.797	-1.456
Rapamycin	-0.988	-1.212
Tcell	-3.125	-1.763
GMCSF	0.314	-1.397
IFNab	1.097	-0.695
IFNg	-1.97	-1.962
IFNg_GMCSF1	-1.904	-1.543
Rv1432_day32	-0.894	-0.143
Rv1565c_day32	-0.235	-0.603
secA2_input	-0.384	-0.085
delta_Rv3594	0.145	1.597
delta_Rv3717	-0.76	1.212
delta_Rv3811	0.141	1.057
delta_Rv0954	1.268	2.218
PonA1	0.15	1.599
EccD1_KO	-0.201	0.0
EspI_KO	0.374	0.405
PE35_KO	0.149	0.922
PPE68_KO	0.266	0.378
glycerol2	1.279	0.544
lignocerate	-1.777	-0.587
oleate	-0.924	-1.113
phosphatidylcholine	-0.913	-0.353
acetate	-0.095	0.657
glucAc	-0.423	0.653
Rv0950ko	0.024	0.88
Rv1096ko	-0.166	0.199
Rv3684ko	-0.763	-0.2
delta_otsA_trehalose	-0.111	0.056