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 Rv0395/-:

update plot	correlation	link to info on gene
Rv2290/lppO	(cc=0.4786)	info on Rv2290/lppO
Rv0233/nrdB	(cc=0.4725)	info on Rv0233/nrdB
Rv3714c/-	(cc=0.469)	info on Rv3714c/-
Rv0817c/-	(cc=0.4621)	info on Rv0817c/-
Rv2994/-	(cc=0.4579)	info on Rv2994/-
Rv0526/-	(cc=0.4498)	info on Rv0526/-
Rv0885/-	(cc=0.4489)	info on Rv0885/-
Rv0677c/mmpS5	(cc=0.4464)	info on Rv0677c/mmpS5
Rv3248c/sahH	(cc=0.4456)	info on Rv3248c/sahH
Rv0889c/citA	(cc=0.4421)	info on Rv0889c/citA

Correlation of Rv0395/- with Rv3248c/sahH

Normalized LFCs for Rv0395/-:
(description and provenance of datasets)

	Rv0395/-	Rv3248c/sahH
Fe_supp_jason_reseq	-0.63	0.0
low_pH_jason_reseq	0.81	0.634
NO_jason_reseq	0.326	0.362
B6_jason_reseq	0.944	0.0
MHCII_jason_reseq	1.404	0.0
Isoniazid02	-0.051	0.0
Rifampicin4	-0.555	0.0
Ethambutol3	-0.855	0.0
Meropenem3	0.455	0.0
Vancomycin16	-0.414	0.0
Rv2680_day32	0.366	0.0
H37Rv_KO_MarP	0.246	0.371
hypoxia_3wks	1.009	0.0
hypoxia_6wks	0.121	0.0
glycerol	-2.722	0.0
cholesterol	-1.903	0.0
AJ	0.119	0.0
Bibs02	0.559	0.0
Bibs02c	0.691	0.0
BL6	0.121	0.0
BL6a	0.276	0.0
BXD01	0.301	0.0
BXD010	-0.734	0.0
BXD011	0.0	0.0
BXD03	0.082	0.0
BXD04	-1.06	0.0
BXD05	-0.053	0.0
BXD06	0.158	0.0
BXD07	-0.412	0.0
BXD08	-0.032	0.0
BXD09	-0.171	0.0
CAST	-0.067	0.0
CCcont	-0.856	0.0
DS01	-0.034	0.0
DS02	0.274	0.0
DS04	0.457	0.0
DS0c	-1.037	0.0
GP01	-1.749	0.0
GP02	0.091	0.0
GP0c	-1.158	0.0
NOD	0.622	0.0
NZO	0.192	0.0
PWK	0.198	0.0
H37Rv_KO_CtpC	-0.155	0.0
H37Rv_KO_CtpD	-1.412	0.127
H37Rv_KO_Rv1272	-1.496	0.0
H37Rv_KO_SugABC	-0.387	0.0
H37Rv_KO_MbtN	-2.332	0.0
Trans05	0.436	0.0
macrophage_unactivated	-0.341	0.0
IL1	0.225	0.0
Rapamycin	-1.353	0.0
Tcell	0.192	0.0
GMCSF	-0.092	0.0
IFNab	-0.647	0.0
IFNg	0.203	0.0
IFNg_GMCSF1	-0.427	0.0
Rv1432_day32	2.241	0.0
Rv1565c_day32	0.49	-0.218
secA2_input	0.831	0.916
delta_Rv3594	1.152	1.127
delta_Rv3717	0.415	-0.159
delta_Rv3811	0.232	0.986
delta_Rv0954	1.644	-0.34
PonA1	0.201	-0.304
EccD1_KO	0.898	0.0
EspI_KO	-0.83	0.0
PE35_KO	-0.038	0.368
PPE68_KO	0.08	0.0
glycerol2	-1.607	-0.88
lignocerate	-1.677	-0.933
oleate	-1.007	-1.086
phosphatidylcholine	-1.542	-1.073
acetate	-3.157	-1.044
glucAc	-1.405	-0.792
Rv0950ko	-0.133	0.0
Rv1096ko	0.691	1.143
Rv3684ko	-0.557	0.452
delta_otsA_trehalose	-0.286	0.0