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 Rv1255c/-:

update plot	correlation	link to info on gene
Rv2306B/-	(cc=0.5803)	info on Rv2306B/-
Rv2874/dipZ	(cc=0.5171)	info on Rv2874/dipZ
Rv1250/-	(cc=0.4906)	info on Rv1250/-
Rv1514c/-	(cc=0.4796)	info on Rv1514c/-
Rv3923c/rnpA	(cc=0.4675)	info on Rv3923c/rnpA
Rv1023/eno	(cc=0.4604)	info on Rv1023/eno
Rv1974/-	(cc=0.4521)	info on Rv1974/-
Rv2515c/-	(cc=0.4461)	info on Rv2515c/-
Rv2470/glbO	(cc=0.4439)	info on Rv2470/glbO
Rv0840c/pip	(cc=0.4422)	info on Rv0840c/pip

Correlation of Rv1255c/- with Rv1023/eno

Normalized LFCs for Rv1255c/-:
(description and provenance of datasets)

	Rv1255c/-	Rv1023/eno
Fe_supp_jason_reseq	0.6	0.415
low_pH_jason_reseq	0.254	0.0
NO_jason_reseq	-0.874	0.0
B6_jason_reseq	0.921	0.0
MHCII_jason_reseq	0.389	0.0
Isoniazid02	0.237	0.0
Rifampicin4	-0.051	0.0
Ethambutol3	-0.362	0.0
Meropenem3	0.217	0.0
Vancomycin16	0.294	0.0
Rv2680_day32	1.749	0.0
H37Rv_KO_MarP	0.275	-0.71
hypoxia_3wks	0.558	0.0
hypoxia_6wks	-0.393	0.0
glycerol	-2.12	0.0
cholesterol	-0.976	0.0
AJ	0.808	0.0
Bibs02	-0.469	0.0
Bibs02c	1.176	0.0
BL6	-0.066	0.0
BL6a	1.016	0.0
BXD01	-1.652	0.0
BXD010	-1.581	0.0
BXD011	-0.963	0.0
BXD03	-1.274	0.0
BXD04	-1.134	0.0
BXD05	-1.616	0.0
BXD06	-1.224	0.0
BXD07	-0.802	0.0
BXD08	-1.064	0.0
BXD09	-0.717	0.0
CAST	-0.848	0.0
CCcont	-0.892	0.149
DS01	0.623	0.0
DS02	0.503	0.0
DS04	0.35	0.0
DS0c	0.352	0.0
GP01	-1.186	0.0
GP02	-0.805	0.0
GP0c	-2.503	0.0
NOD	-1.035	0.0
NZO	0.574	0.0
PWK	-0.041	0.0
H37Rv_KO_CtpC	0.145	0.0
H37Rv_KO_CtpD	-0.308	0.0
H37Rv_KO_Rv1272	-0.22	0.0
H37Rv_KO_SugABC	0.464	0.0
H37Rv_KO_MbtN	-1.744	0.0
Trans05	-0.501	0.0
macrophage_unactivated	0.221	0.0
IL1	-0.572	0.0
Rapamycin	0.761	0.0
Tcell	-0.56	0.0
GMCSF	-1.291	0.0
IFNab	0.466	0.0
IFNg	-0.569	0.0
IFNg_GMCSF1	-0.057	0.0
Rv1432_day32	-2.619	0.0
Rv1565c_day32	-0.4	0.0
secA2_input	-1.481	-0.759
delta_Rv3594	-0.635	0.0
delta_Rv3717	-0.214	0.0
delta_Rv3811	0.683	0.0
delta_Rv0954	0.265	0.0
PonA1	-2.052	0.0
EccD1_KO	2.033	1.595
EspI_KO	1.714	1.934
PE35_KO	1.558	1.105
PPE68_KO	1.709	0.841
glycerol2	-1.684	0.0
lignocerate	-0.638	0.0
oleate	-1.704	0.0
phosphatidylcholine	-1.153	0.0
acetate	0.716	0.0
glucAc	0.825	0.0
Rv0950ko	-1.01	0.0
Rv1096ko	-1.9	-0.793
Rv3684ko	-0.681	-0.861
delta_otsA_trehalose	0.135	0.0