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 Rv0223c/-:

update plot	correlation	link to info on gene
Rv3147/nuoC	(cc=0.4701)	info on Rv3147/nuoC
Rv3406/-	(cc=0.4124)	info on Rv3406/-
Rv3300c/-	(cc=0.4051)	info on Rv3300c/-
Rv3143/-	(cc=0.4032)	info on Rv3143/-
Rv3504/fadE26	(cc=0.4003)	info on Rv3504/fadE26
Rv1216c/-	(cc=0.3952)	info on Rv1216c/-
Rv3184/-	(cc=0.3945)	info on Rv3184/-
Rv0771/-	(cc=0.3902)	info on Rv0771/-
Rv0672/fadE8	(cc=0.3781)	info on Rv0672/fadE8
Rv2963/-	(cc=0.3776)	info on Rv2963/-

Correlation of Rv0223c/- with Rv0771/-

Normalized LFCs for Rv0223c/-:
(description and provenance of datasets)

	Rv0223c/-	Rv0771/-
Fe_supp_jason_reseq	-0.762	0.077
low_pH_jason_reseq	0.095	0.266
NO_jason_reseq	-0.457	-0.517
B6_jason_reseq	-0.284	0.257
MHCII_jason_reseq	-0.521	0.977
Isoniazid02	-0.288	0.259
Rifampicin4	0.13	0.046
Ethambutol3	-0.412	-0.562
Meropenem3	0.347	-0.242
Vancomycin16	-0.268	1.398
Rv2680_day32	-0.554	-0.281
H37Rv_KO_MarP	0.214	0.436
hypoxia_3wks	-0.084	0.275
hypoxia_6wks	-0.111	0.47
glycerol	-0.55	-1.498
cholesterol	-1.008	-1.152
AJ	0.022	0.746
Bibs02	0.78	0.634
Bibs02c	-0.468	-0.456
BL6	0.534	1.053
BL6a	-0.199	-0.105
BXD01	0.506	0.581
BXD010	0.392	0.338
BXD011	0.56	0.284
BXD03	0.354	-0.239
BXD04	0.378	0.714
BXD05	0.846	0.142
BXD06	0.369	0.192
BXD07	0.718	0.428
BXD08	0.328	0.775
BXD09	0.449	0.116
CAST	0.424	-0.43
CCcont	0.188	0.616
DS01	0.654	-0.347
DS02	0.665	-0.769
DS04	0.537	0.221
DS0c	0.237	0.074
GP01	0.535	0.178
GP02	0.646	-0.948
GP0c	0.452	-0.284
NOD	0.687	0.076
NZO	0.581	0.539
PWK	0.513	0.854
H37Rv_KO_CtpC	-0.59	-0.115
H37Rv_KO_CtpD	-1.085	-1.731
H37Rv_KO_Rv1272	-0.611	0.012
H37Rv_KO_SugABC	1.184	0.05
H37Rv_KO_MbtN	-0.183	-1.027
Trans05	-0.547	0.149
macrophage_unactivated	-0.505	-0.129
IL1	-0.475	-0.851
Rapamycin	0.028	0.353
Tcell	0.228	-0.935
GMCSF	-0.475	0.106
IFNab	-0.453	-0.218
IFNg	-0.591	-0.834
IFNg_GMCSF1	0.625	-0.031
Rv1432_day32	0.267	-0.083
Rv1565c_day32	-0.36	0.523
secA2_input	-0.041	0.0
delta_Rv3594	0.219	0.991
delta_Rv3717	0.4	-0.17
delta_Rv3811	-0.299	-0.272
delta_Rv0954	0.715	-0.509
PonA1	-0.472	0.0
EccD1_KO	0.378	1.345
EspI_KO	0.95	2.227
PE35_KO	0.228	1.878
PPE68_KO	0.486	2.665
glycerol2	0.238	0.814
lignocerate	0.1	0.816
oleate	0.471	0.713
phosphatidylcholine	0.268	1.035
acetate	-0.02	0.776
glucAc	-0.13	0.539
Rv0950ko	0.41	-0.106
Rv1096ko	0.905	1.381
Rv3684ko	-0.491	0.056
delta_otsA_trehalose	0.503	0.687