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 Rv0316/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1323/fadA4	(cc=0.6757)	info on Rv1323/fadA4
Rv1378c/-	(cc=0.6704)	info on Rv1378c/-
Rv3354/-	(cc=0.6247)	info on Rv3354/-
Rv2405/-	(cc=0.6096)	info on Rv2405/-
Rv3056/dinP	(cc=0.6062)	info on Rv3056/dinP
Rv1160/mutT2	(cc=0.6035)	info on Rv1160/mutT2
Rv0571c/-	(cc=0.6034)	info on Rv0571c/-
Rv2633c/-	(cc=0.5993)	info on Rv2633c/-
Rv3705A/-	(cc=0.5976)	info on Rv3705A/-
Rv0850/-	(cc=0.5964)	info on Rv0850/-

Correlation of Rv0316/- with Rv1323/fadA4

Normalized LFCs for Rv0316/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0316/-	Rv1323/fadA4
Fe_supp_jason_reseq	-1.37	-0.66
low_pH_jason_reseq	-0.494	0.457
NO_jason_reseq	0.323	-1.097
B6_jason_reseq	-0.788	-0.71
MHCII_jason_reseq	-0.414	0.604
Isoniazid02	0.633	1.058
Rifampicin4	1.178	0.425
Ethambutol3	0.64	1.045
Meropenem3	0.478	1.236
Vancomycin16	0.584	0.982
Rv2680_day32	0.061	-0.734
H37Rv_KO_MarP	0.214	0.885
hypoxia_3wks	-0.606	-0.502
hypoxia_6wks	-1.376	-1.462
glycerol	-0.66	-0.047
cholesterol	-0.105	0.055
AJ	-0.294	-0.376
Bibs02	1.318	-0.121
Bibs02c	0.708	-0.02
BL6	-1.256	-2.727
BL6a	-0.954	-1.342
BXD01	-1.129	-2.864
BXD010	-1.794	-2.137
BXD011	-1.351	-3.063
BXD03	-0.896	-2.196
BXD04	-1.265	-2.652
BXD05	-1.351	-2.511
BXD06	-1.551	-2.77
BXD07	-1.39	-2.721
BXD08	-1.288	-3.027
BXD09	-1.219	-2.917
CAST	0.23	-0.868
CCcont	-0.951	-1.199
DS01	-0.067	-0.592
DS02	1.007	-0.121
DS04	0.586	-1.566
DS0c	-0.751	-0.596
GP01	0.416	-1.94
GP02	0.104	-2.603
GP0c	-0.305	-3.04
NOD	0.714	0.628
NZO	-0.468	-1.753
PWK	-0.202	-0.521
H37Rv_KO_CtpC	-0.856	0.172
H37Rv_KO_CtpD	0.752	-0.962
H37Rv_KO_Rv1272	-2.517	-2.119
H37Rv_KO_SugABC	-0.738	-0.711
H37Rv_KO_MbtN	0.256	-1.156
Trans05	-0.531	-1.482
macrophage_unactivated	-0.754	-1.496
IL1	-1.554	-1.062
Rapamycin	-1.203	-1.495
Tcell	-0.779	-0.746
GMCSF	-1.436	-1.545
IFNab	-1.025	-1.433
IFNg	-0.639	-1.721
IFNg_GMCSF1	-0.958	-0.377
Rv1432_day32	1.275	-0.724
Rv1565c_day32	0.063	0.697
secA2_input	0.261	0.473
delta_Rv3594	0.684	0.34
delta_Rv3717	-0.305	-0.313
delta_Rv3811	0.471	0.034
delta_Rv0954	1.067	0.643
PonA1	0.892	0.291
EccD1_KO	-0.365	0.421
EspI_KO	-0.285	-0.051
PE35_KO	0.093	0.251
PPE68_KO	-0.07	0.275
glycerol2	0.977	0.586
lignocerate	0.528	1.196
oleate	0.21	0.303
phosphatidylcholine	0.909	0.847
acetate	1.238	0.74
glucAc	0.972	0.642
Rv0950ko	0.778	0.431
Rv1096ko	0.175	0.676
Rv3684ko	0.239	0.056
delta_otsA_trehalose	-1.132	-1.023