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 Rv0320/-:

update plot	correlation	link to info on gene
Rv0338c/-	(cc=0.6864)	info on Rv0338c/-
Rv2095c/pafC	(cc=0.5826)	info on Rv2095c/pafC
Rv1675c/cmr	(cc=0.5585)	info on Rv1675c/cmr
Rv0069c/sdaA	(cc=0.5463)	info on Rv0069c/sdaA
Rv1371/-	(cc=0.5263)	info on Rv1371/-
Rv0373c/-	(cc=0.5155)	info on Rv0373c/-
Rv1368/lprF	(cc=0.5098)	info on Rv1368/lprF
Rv1807/PPE31	(cc=0.5081)	info on Rv1807/PPE31
Rv2189c/-	(cc=0.5023)	info on Rv2189c/-
Rv3154/nuoJ	(cc=0.5014)	info on Rv3154/nuoJ

Correlation of Rv0320/- with Rv0338c/-

Normalized LFCs for Rv0320/-:
(description and provenance of datasets)

	Rv0320/-	Rv0338c/-
Fe_supp_jason_reseq	0.911	0.0
low_pH_jason_reseq	-0.766	0.0
NO_jason_reseq	-0.601	0.0
B6_jason_reseq	0.942	0.0
MHCII_jason_reseq	1.499	0.0
Isoniazid02	-1.008	0.0
Rifampicin4	0.084	0.0
Ethambutol3	0.677	0.0
Meropenem3	-0.791	0.0
Vancomycin16	-0.578	0.0
Rv2680_day32	-0.25	0.0
H37Rv_KO_MarP	0.672	0.0
hypoxia_3wks	0.594	0.0
hypoxia_6wks	0.844	0.0
glycerol	0.636	0.385
cholesterol	4.951	3.545
AJ	0.608	0.0
Bibs02	0.29	0.0
Bibs02c	0.815	0.0
BL6	-0.906	0.0
BL6a	-0.019	0.0
BXD01	-0.681	0.0
BXD010	-0.101	0.0
BXD011	0.134	0.0
BXD03	0.445	0.0
BXD04	0.165	0.0
BXD05	-0.212	0.0
BXD06	-0.485	0.0
BXD07	-0.264	0.0
BXD08	-0.289	0.0
BXD09	-0.05	0.0
CAST	-0.237	0.0
CCcont	-1.11	0.0
DS01	0.683	0.0
DS02	0.685	0.0
DS04	0.148	0.0
DS0c	0.481	0.0
GP01	-0.064	0.0
GP02	0.52	0.0
GP0c	0.608	0.0
NOD	-0.109	0.0
NZO	0.25	0.0
PWK	0.155	0.0
H37Rv_KO_CtpC	-0.379	0.0
H37Rv_KO_CtpD	0.036	0.0
H37Rv_KO_Rv1272	0.483	0.0
H37Rv_KO_SugABC	-0.291	0.0
H37Rv_KO_MbtN	0.374	0.0
Trans05	-0.234	0.0
macrophage_unactivated	-0.155	0.0
IL1	0.243	0.0
Rapamycin	0.282	0.0
Tcell	-0.339	0.0
GMCSF	0.269	0.0
IFNab	0.203	0.0
IFNg	-0.131	0.0
IFNg_GMCSF1	0.399	0.0
Rv1432_day32	-0.402	0.0
Rv1565c_day32	-0.597	0.0
secA2_input	-0.139	0.847
delta_Rv3594	-0.824	0.0
delta_Rv3717	-0.522	0.0
delta_Rv3811	-0.062	0.0
delta_Rv0954	-0.735	0.0
PonA1	-0.778	0.0
EccD1_KO	0.148	0.0
EspI_KO	-0.727	0.0
PE35_KO	-0.487	0.0
PPE68_KO	-0.461	0.0
glycerol2	-0.611	0.0
lignocerate	-0.902	0.0
oleate	-0.109	0.0
phosphatidylcholine	-0.394	0.0
acetate	-0.598	0.0
glucAc	-0.687	0.0
Rv0950ko	0.57	0.0
Rv1096ko	1.01	0.0
Rv3684ko	0.901	0.0
delta_otsA_trehalose	0.469	0.133