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 Rv0859/fadA:

update plot	correlation	link to info on gene
Rv0860/fadB	(cc=0.7582)	info on Rv0860/fadB
Rv0038/-	(cc=0.6275)	info on Rv0038/-
Rv0910/-	(cc=0.5789)	info on Rv0910/-
Rv3261/fbiA	(cc=0.5722)	info on Rv3261/fbiA
Rv0998/-	(cc=0.5721)	info on Rv0998/-
Rv0407/fgd1	(cc=0.5585)	info on Rv0407/fgd1
Rv0561c/-	(cc=0.5376)	info on Rv0561c/-
Rv1473/-	(cc=0.5331)	info on Rv1473/-
Rv0467/icl1	(cc=0.5304)	info on Rv0467/icl1
Rv1324/-	(cc=0.5121)	info on Rv1324/-

Correlation of Rv0859/fadA with Rv0467/icl1

Normalized LFCs for Rv0859/fadA:
(description and provenance of datasets)

	Rv0859/fadA	Rv0467/icl1
Fe_supp_jason_reseq	-0.688	0.182
low_pH_jason_reseq	-0.877	-0.211
NO_jason_reseq	-2.793	-0.69
B6_jason_reseq	-1.334	-0.292
MHCII_jason_reseq	-0.512	-0.257
Isoniazid02	1.288	0.201
Rifampicin4	0.157	0.712
Ethambutol3	0.37	0.59
Meropenem3	-0.509	0.165
Vancomycin16	-0.499	0.366
Rv2680_day32	-0.554	0.0
H37Rv_KO_MarP	-0.384	0.586
hypoxia_3wks	1.049	0.0
hypoxia_6wks	-1.075	0.0
glycerol	2.817	0.554
cholesterol	2.515	0.0
AJ	-0.751	0.0
Bibs02	-0.775	0.0
Bibs02c	0.629	0.0
BL6	-0.187	0.0
BL6a	0.973	0.0
BXD01	-0.552	0.0
BXD010	-0.543	0.0
BXD011	-0.412	0.0
BXD03	-0.573	0.0
BXD04	-0.524	0.0
BXD05	-0.314	0.0
BXD06	-0.311	0.0
BXD07	-0.323	0.0
BXD08	-0.431	0.0
BXD09	-0.328	0.0
CAST	-0.344	0.0
CCcont	2.961	1.765
DS01	2.421	0.0
DS02	0.414	0.0
DS04	1.938	0.194
DS0c	2.637	0.0
GP01	-0.418	0.0
GP02	-0.353	0.0
GP0c	-0.551	0.0
NOD	-0.335	0.0
NZO	-0.845	0.0
PWK	-0.635	0.0
H37Rv_KO_CtpC	-0.526	0.0
H37Rv_KO_CtpD	0.0	0.537
H37Rv_KO_Rv1272	-0.102	0.0
H37Rv_KO_SugABC	0.817	0.0
H37Rv_KO_MbtN	0.362	0.196
Trans05	-0.423	0.0
macrophage_unactivated	0.915	0.0
IL1	-1.077	0.0
Rapamycin	-1.114	0.0
Tcell	-1.183	0.0
GMCSF	-0.449	0.0
IFNab	-0.514	0.0
IFNg	-0.703	0.0
IFNg_GMCSF1	-1.141	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.559	0.0
secA2_input	0.878	1.77
delta_Rv3594	2.896	-0.193
delta_Rv3717	0.165	-0.159
delta_Rv3811	2.391	-0.391
delta_Rv0954	3.509	0.65
PonA1	0.223	-0.304
EccD1_KO	0.395	0.0
EspI_KO	1.609	1.859
PE35_KO	1.324	2.917
PPE68_KO	1.805	2.678
glycerol2	0.528	-1.073
lignocerate	-0.666	-0.933
oleate	-3.56	-1.086
phosphatidylcholine	-0.265	-1.073
acetate	2.937	0.136
glucAc	1.171	0.451
Rv0950ko	-2.237	-1.182
Rv1096ko	-3.372	-2.434
Rv3684ko	-1.985	-1.284
delta_otsA_trehalose	-0.39	0.0