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 Rv0487/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3057c/-	(cc=0.5341)	info on Rv3057c/-
Rv3316/sdhC	(cc=0.5096)	info on Rv3316/sdhC
Rv3666c/dppA	(cc=0.4997)	info on Rv3666c/dppA
Rv2795c/-	(cc=0.4981)	info on Rv2795c/-
Rv2989/-	(cc=0.4971)	info on Rv2989/-
Rv2381c/mbtD	(cc=0.4942)	info on Rv2381c/mbtD
Rv1820/ilvG	(cc=0.4935)	info on Rv1820/ilvG
Rv0554/bpoC	(cc=0.492)	info on Rv0554/bpoC
Rv2383c/mbtB	(cc=0.4666)	info on Rv2383c/mbtB
Rv3574/kstR	(cc=0.4591)	info on Rv3574/kstR

Correlation of Rv0487/- with Rv3057c/-

Normalized LFCs for Rv0487/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0487/-	Rv3057c/-
Fe_supp_jason_reseq	-1.126	-0.59
low_pH_jason_reseq	0.724	-0.609
NO_jason_reseq	-1.019	-0.84
B6_jason_reseq	-0.925	-2.072
MHCII_jason_reseq	-2.322	-1.985
Isoniazid02	-0.183	-0.333
Rifampicin4	0.485	-0.084
Ethambutol3	0.291	-0.285
Meropenem3	-0.316	0.713
Vancomycin16	-0.175	1.724
Rv2680_day32	-1.82	-2.261
H37Rv_KO_MarP	0.291	0.047
hypoxia_3wks	-2.648	-0.542
hypoxia_6wks	-0.856	-0.716
glycerol	-0.236	-1.164
cholesterol	-1.23	-0.547
AJ	-1.019	-2.245
Bibs02	-0.405	-1.888
Bibs02c	-1.275	-2.123
BL6	-0.026	-1.134
BL6a	-1.581	-2.414
BXD01	-1.059	-2.872
BXD010	-1.016	-1.1
BXD011	-0.973	-2.12
BXD03	-0.775	-1.068
BXD04	-0.582	-2.004
BXD05	-1.444	-1.993
BXD06	0.086	-2.135
BXD07	-1.326	-1.915
BXD08	-1.427	-2.02
BXD09	-1.314	-2.19
CAST	0.584	-1.775
CCcont	-0.671	-0.965
DS01	-1.045	-3.037
DS02	-0.416	-2.511
DS04	-1.206	-2.965
DS0c	-1.006	-2.362
GP01	-2.219	-1.134
GP02	-0.831	-1.13
GP0c	-2.217	-1.131
NOD	-0.068	-1.03
NZO	-1.477	-2.25
PWK	0.907	-1.071
H37Rv_KO_CtpC	1.11	0.224
H37Rv_KO_CtpD	0.028	-0.668
H37Rv_KO_Rv1272	-1.311	-1.491
H37Rv_KO_SugABC	-1.46	-2.062
H37Rv_KO_MbtN	0.037	-1.317
Trans05	-0.857	-2.483
macrophage_unactivated	0.038	-0.571
IL1	0.593	0.228
Rapamycin	-0.313	0.285
Tcell	1.773	0.476
GMCSF	-0.523	0.372
IFNab	-2.419	0.218
IFNg	0.211	0.417
IFNg_GMCSF1	0.434	0.459
Rv1432_day32	-2.09	-3.233
Rv1565c_day32	-0.637	0.049
secA2_input	-0.338	-0.014
delta_Rv3594	-2.112	-2.074
delta_Rv3717	-1.436	-3.053
delta_Rv3811	-1.819	-1.991
delta_Rv0954	-0.221	0.77
PonA1	-0.539	0.555
EccD1_KO	0.753	0.888
EspI_KO	0.288	0.844
PE35_KO	-0.37	0.149
PPE68_KO	-0.544	0.506
glycerol2	0.388	0.914
lignocerate	0.0	-0.96
oleate	-1.469	-1.733
phosphatidylcholine	0.769	-0.978
acetate	0.344	0.382
glucAc	0.255	0.303
Rv0950ko	-0.467	-0.292
Rv1096ko	-0.467	0.558
Rv3684ko	-1.333	-0.626
delta_otsA_trehalose	0.87	-0.35