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 Rv3147/nuoC

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

	Rv0223c/-	Rv3147/nuoC
Fe_supp_jason_reseq	-0.762	-2.029
low_pH_jason_reseq	0.095	0.08
NO_jason_reseq	-0.457	0.063
B6_jason_reseq	-0.284	-0.549
MHCII_jason_reseq	-0.521	-0.786
Isoniazid02	-0.288	-0.358
Rifampicin4	0.13	-0.666
Ethambutol3	-0.412	-0.598
Meropenem3	0.347	0.234
Vancomycin16	-0.268	-0.878
Rv2680_day32	-0.554	-0.154
H37Rv_KO_MarP	0.214	-1.219
hypoxia_3wks	-0.084	-0.251
hypoxia_6wks	-0.111	1.069
glycerol	-0.55	-0.78
cholesterol	-1.008	-0.968
AJ	0.022	0.087
Bibs02	0.78	0.069
Bibs02c	-0.468	-0.253
BL6	0.534	1.557
BL6a	-0.199	0.901
BXD01	0.506	0.919
BXD010	0.392	1.694
BXD011	0.56	1.165
BXD03	0.354	1.03
BXD04	0.378	0.516
BXD05	0.846	1.242
BXD06	0.369	2.426
BXD07	0.718	1.667
BXD08	0.328	0.789
BXD09	0.449	0.936
CAST	0.424	0.087
CCcont	0.188	0.525
DS01	0.654	0.732
DS02	0.665	0.879
DS04	0.537	0.401
DS0c	0.237	0.234
GP01	0.535	0.055
GP02	0.646	0.981
GP0c	0.452	0.575
NOD	0.687	0.599
NZO	0.581	1.183
PWK	0.513	0.553
H37Rv_KO_CtpC	-0.59	-1.717
H37Rv_KO_CtpD	-1.085	-1.213
H37Rv_KO_Rv1272	-0.611	1.198
H37Rv_KO_SugABC	1.184	1.95
H37Rv_KO_MbtN	-0.183	0.831
Trans05	-0.547	0.119
macrophage_unactivated	-0.505	-1.187
IL1	-0.475	0.089
Rapamycin	0.028	-0.387
Tcell	0.228	-0.199
GMCSF	-0.475	-0.42
IFNab	-0.453	0.348
IFNg	-0.591	-0.291
IFNg_GMCSF1	0.625	1.087
Rv1432_day32	0.267	-1.304
Rv1565c_day32	-0.36	-0.218
secA2_input	-0.041	-0.396
delta_Rv3594	0.219	-1.037
delta_Rv3717	0.4	-0.765
delta_Rv3811	-0.299	-1.724
delta_Rv0954	0.715	-0.486
PonA1	-0.472	-1.829
EccD1_KO	0.378	-0.109
EspI_KO	0.95	-2.493
PE35_KO	0.228	-0.904
PPE68_KO	0.486	-0.384
glycerol2	0.238	2.163
lignocerate	0.1	0.983
oleate	0.471	0.163
phosphatidylcholine	0.268	0.819
acetate	-0.02	2.031
glucAc	-0.13	1.415
Rv0950ko	0.41	0.277
Rv1096ko	0.905	1.236
Rv3684ko	-0.491	-1.117
delta_otsA_trehalose	0.503	1.159