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 Rv3493c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3494c/mce4F	(cc=0.7882)	info on Rv3494c/mce4F
Rv3496c/mce4D	(cc=0.7727)	info on Rv3496c/mce4D
Rv3495c/lprN	(cc=0.7684)	info on Rv3495c/lprN
Rv3500c/yrbE4B	(cc=0.762)	info on Rv3500c/yrbE4B
Rv0485/-	(cc=0.7502)	info on Rv0485/-
Rv0381c/-	(cc=0.7235)	info on Rv0381c/-
Rv1590/-	(cc=0.7062)	info on Rv1590/-
Rv3499c/mce4A	(cc=0.7054)	info on Rv3499c/mce4A
Rv1568/bioA	(cc=0.7002)	info on Rv1568/bioA
Rv2799/-	(cc=0.6844)	info on Rv2799/-

Correlation of Rv3493c/- with Rv3494c/mce4F

Normalized LFCs for Rv3493c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3493c/-	Rv3494c/mce4F
Fe_supp_jason_reseq	-0.365	-0.073
low_pH_jason_reseq	-1.718	-0.733
NO_jason_reseq	-0.819	-0.142
B6_jason_reseq	-1.714	-1.135
MHCII_jason_reseq	-2.063	-2.433
Isoniazid02	-0.343	-0.185
Rifampicin4	0.596	0.441
Ethambutol3	0.071	0.726
Meropenem3	-0.761	-0.877
Vancomycin16	0.35	0.056
Rv2680_day32	0.423	-2.426
H37Rv_KO_MarP	-0.598	0.298
hypoxia_3wks	0.231	0.12
hypoxia_6wks	-0.965	0.518
glycerol	-1.102	0.654
cholesterol	-3.343	-4.127
AJ	-1.403	-2.158
Bibs02	-2.628	-1.192
Bibs02c	-2.657	-1.884
BL6	-2.762	-1.089
BL6a	-2.847	-1.459
BXD01	-1.604	-1.097
BXD010	-2.712	-0.806
BXD011	-2.085	-1.349
BXD03	-2.006	-0.963
BXD04	-1.272	-1.114
BXD05	-1.191	-0.942
BXD06	-2.114	-1.436
BXD07	-1.87	-0.722
BXD08	-2.601	-1.577
BXD09	-2.153	-1.587
CAST	-2.836	-1.817
CCcont	-0.966	0.455
DS01	-3.29	-3.092
DS02	-2.108	-1.802
DS04	-1.717	-1.663
DS0c	-2.102	-1.711
GP01	0.502	-0.667
GP02	-0.556	-0.613
GP0c	-0.416	-0.033
NOD	-2.605	-0.638
NZO	-1.166	-1.124
PWK	-2.345	-2.18
H37Rv_KO_CtpC	-2.489	-1.414
H37Rv_KO_CtpD	-2.221	-1.553
H37Rv_KO_Rv1272	-0.943	-0.036
H37Rv_KO_SugABC	0.799	0.288
H37Rv_KO_MbtN	1.151	0.285
Trans05	-0.569	-0.722
macrophage_unactivated	-1.092	-1.24
IL1	1.975	2.379
Rapamycin	2.949	2.032
Tcell	0.642	-0.117
GMCSF	-1.18	-1.294
IFNab	-1.769	-1.796
IFNg	-1.267	-0.337
IFNg_GMCSF1	-1.244	-1.367
Rv1432_day32	-2.092	-2.716
Rv1565c_day32	-2.088	-3.499
secA2_input	-0.294	0.293
delta_Rv3594	0.112	-0.246
delta_Rv3717	-0.077	-0.156
delta_Rv3811	-0.973	-0.788
delta_Rv0954	-0.411	-0.079
PonA1	0.664	-0.247
EccD1_KO	1.796	0.717
EspI_KO	0.961	0.519
PE35_KO	0.758	0.02
PPE68_KO	1.705	0.422
glycerol2	-0.787	-0.891
lignocerate	0.358	0.253
oleate	1.018	0.159
phosphatidylcholine	-0.517	-1.021
acetate	-0.201	-0.216
glucAc	-0.478	-0.035
Rv0950ko	0.464	0.657
Rv1096ko	1.502	0.881
Rv3684ko	0.504	0.825
delta_otsA_trehalose	0.861	0.014