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 Rv1895/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0798c/cfp29	(cc=0.4421)	info on Rv0798c/cfp29
Rv3472/-	(cc=0.3755)	info on Rv3472/-
Rv0308/-	(cc=0.3715)	info on Rv0308/-
Rv0571c/-	(cc=0.3686)	info on Rv0571c/-
Rv1899c/lppD	(cc=0.3664)	info on Rv1899c/lppD
Rv3622c/PE32	(cc=0.3655)	info on Rv3622c/PE32
Rv2313c/-	(cc=0.3583)	info on Rv2313c/-
Rv2667/clpC2	(cc=0.3544)	info on Rv2667/clpC2
Rv0925c/-	(cc=0.3503)	info on Rv0925c/-
Rv0940c/-	(cc=0.3395)	info on Rv0940c/-

Correlation of Rv1895/- with Rv0798c/cfp29

Normalized LFCs for Rv1895/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1895/-	Rv0798c/cfp29
Fe_supp_jason_reseq	0.227	-1.043
low_pH_jason_reseq	0.025	1.091
NO_jason_reseq	-0.205	0.076
B6_jason_reseq	0.16	0.324
MHCII_jason_reseq	-0.207	-0.12
Isoniazid02	-1.01	0.095
Rifampicin4	-0.143	0.176
Ethambutol3	-0.992	-0.17
Meropenem3	-0.831	0.053
Vancomycin16	-0.541	0.443
Rv2680_day32	0.226	1.292
H37Rv_KO_MarP	-0.19	-0.378
hypoxia_3wks	-0.435	-1.551
hypoxia_6wks	-0.848	-1.416
glycerol	-0.585	-0.272
cholesterol	-0.142	-0.046
AJ	0.03	-0.151
Bibs02	0.529	1.044
Bibs02c	-0.412	-0.79
BL6	-0.14	0.346
BL6a	-0.329	0.346
BXD01	0.441	0.984
BXD010	-0.263	-0.605
BXD011	-0.134	0.383
BXD03	-0.71	0.272
BXD04	0.273	0.751
BXD05	-1.425	1.058
BXD06	-0.14	0.233
BXD07	-0.056	0.841
BXD08	-0.241	1.065
BXD09	-0.277	0.853
CAST	-0.015	1.23
CCcont	-0.801	1.106
DS01	0.123	0.82
DS02	-0.134	-0.217
DS04	0.149	-0.732
DS0c	-0.31	0.702
GP01	0.305	-0.099
GP02	-1.383	-0.81
GP0c	-0.446	-0.551
NOD	-0.389	0.88
NZO	-0.238	-1.15
PWK	-0.844	-0.337
H37Rv_KO_CtpC	-0.219	0.194
H37Rv_KO_CtpD	-0.281	1.96
H37Rv_KO_Rv1272	0.909	0.284
H37Rv_KO_SugABC	-0.446	-0.964
H37Rv_KO_MbtN	0.876	1.833
Trans05	0.775	1.581
macrophage_unactivated	0.783	1.016
IL1	-0.181	-0.332
Rapamycin	-0.387	-0.114
Tcell	0.808	0.857
GMCSF	-1.486	-0.296
IFNab	-0.139	0.314
IFNg	-1.272	-0.984
IFNg_GMCSF1	-0.943	-0.606
Rv1432_day32	0.306	0.936
Rv1565c_day32	0.19	-0.381
secA2_input	-0.683	-0.593
delta_Rv3594	-0.19	-0.535
delta_Rv3717	0.0	-0.583
delta_Rv3811	-0.091	0.739
delta_Rv0954	-0.031	-0.318
PonA1	0.689	-0.725
EccD1_KO	0.73	1.779
EspI_KO	0.522	1.791
PE35_KO	0.128	1.747
PPE68_KO	0.326	2.521
glycerol2	0.024	0.617
lignocerate	-0.077	0.655
oleate	0.404	0.162
phosphatidylcholine	0.409	0.81
acetate	-0.309	0.19
glucAc	-0.288	0.209
Rv0950ko	0.238	1.095
Rv1096ko	0.283	-0.181
Rv3684ko	0.308	0.547
delta_otsA_trehalose	0.059	0.803