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 Rv1216c/-

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

	Rv0223c/-	Rv1216c/-
Fe_supp_jason_reseq	-0.762	0.101
low_pH_jason_reseq	0.095	0.253
NO_jason_reseq	-0.457	-0.307
B6_jason_reseq	-0.284	-0.659
MHCII_jason_reseq	-0.521	-0.196
Isoniazid02	-0.288	0.012
Rifampicin4	0.13	-0.211
Ethambutol3	-0.412	-0.242
Meropenem3	0.347	-0.083
Vancomycin16	-0.268	0.021
Rv2680_day32	-0.554	-0.377
H37Rv_KO_MarP	0.214	0.577
hypoxia_3wks	-0.084	0.255
hypoxia_6wks	-0.111	-0.244
glycerol	-0.55	-0.43
cholesterol	-1.008	-0.6
AJ	0.022	0.506
Bibs02	0.78	1.037
Bibs02c	-0.468	-0.247
BL6	0.534	0.758
BL6a	-0.199	0.096
BXD01	0.506	0.725
BXD010	0.392	0.655
BXD011	0.56	0.271
BXD03	0.354	0.861
BXD04	0.378	0.706
BXD05	0.846	0.231
BXD06	0.369	0.703
BXD07	0.718	0.729
BXD08	0.328	0.754
BXD09	0.449	0.602
CAST	0.424	0.455
CCcont	0.188	0.435
DS01	0.654	0.38
DS02	0.665	-0.318
DS04	0.537	0.645
DS0c	0.237	0.473
GP01	0.535	0.527
GP02	0.646	-0.244
GP0c	0.452	-0.257
NOD	0.687	0.612
NZO	0.581	-0.038
PWK	0.513	0.22
H37Rv_KO_CtpC	-0.59	-0.192
H37Rv_KO_CtpD	-1.085	0.327
H37Rv_KO_Rv1272	-0.611	-0.045
H37Rv_KO_SugABC	1.184	-0.219
H37Rv_KO_MbtN	-0.183	1.059
Trans05	-0.547	-0.239
macrophage_unactivated	-0.505	0.152
IL1	-0.475	0.062
Rapamycin	0.028	0.27
Tcell	0.228	0.756
GMCSF	-0.475	0.232
IFNab	-0.453	-0.063
IFNg	-0.591	0.075
IFNg_GMCSF1	0.625	-0.066
Rv1432_day32	0.267	-0.053
Rv1565c_day32	-0.36	-0.175
secA2_input	-0.041	-0.153
delta_Rv3594	0.219	0.266
delta_Rv3717	0.4	-0.145
delta_Rv3811	-0.299	-0.013
delta_Rv0954	0.715	-0.176
PonA1	-0.472	-0.953
EccD1_KO	0.378	0.395
EspI_KO	0.95	0.425
PE35_KO	0.228	0.405
PPE68_KO	0.486	0.909
glycerol2	0.238	0.0
lignocerate	0.1	-0.502
oleate	0.471	0.449
phosphatidylcholine	0.268	0.262
acetate	-0.02	-0.598
glucAc	-0.13	-0.607
Rv0950ko	0.41	0.051
Rv1096ko	0.905	0.232
Rv3684ko	-0.491	-0.206
delta_otsA_trehalose	0.503	-1.034