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 Rv0221/-:

update plot	correlation	link to info on gene
Rv0918/-	(cc=0.4923)	info on Rv0918/-
Rv0071/-	(cc=0.4739)	info on Rv0071/-
Rv2882c/frr	(cc=0.4731)	info on Rv2882c/frr
Rv2678c/hemE	(cc=0.4622)	info on Rv2678c/hemE
Rv3135/PPE50	(cc=0.4602)	info on Rv3135/PPE50
Rv3673c/-	(cc=0.455)	info on Rv3673c/-
Rv3858c/gltD	(cc=0.445)	info on Rv3858c/gltD
Rv3606c/folK	(cc=0.4331)	info on Rv3606c/folK
Rv3753c/-	(cc=0.4254)	info on Rv3753c/-
Rv3765c/tcrX	(cc=0.4185)	info on Rv3765c/tcrX

Correlation of Rv0221/- with Rv3673c/-

Normalized LFCs for Rv0221/-:
(description and provenance of datasets)

	Rv0221/-	Rv3673c/-
Fe_supp_jason_reseq	1.018	0.0
low_pH_jason_reseq	0.264	0.0
NO_jason_reseq	-0.252	0.0
B6_jason_reseq	1.237	0.0
MHCII_jason_reseq	1.549	0.0
Isoniazid02	0.627	0.0
Rifampicin4	0.07	0.0
Ethambutol3	0.685	0.0
Meropenem3	0.208	0.0
Vancomycin16	0.239	0.0
Rv2680_day32	0.687	0.0
H37Rv_KO_MarP	0.524	0.0
hypoxia_3wks	0.195	0.0
hypoxia_6wks	0.714	0.0
glycerol	0.184	0.0
cholesterol	-0.282	0.0
AJ	-0.198	0.0
Bibs02	0.025	0.0
Bibs02c	0.243	0.0
BL6	0.323	0.0
BL6a	0.382	0.0
BXD01	-0.121	0.0
BXD010	0.372	0.0
BXD011	0.435	0.0
BXD03	0.261	0.0
BXD04	0.008	0.0
BXD05	0.205	0.0
BXD06	-0.066	0.0
BXD07	0.065	0.0
BXD08	0.33	0.0
BXD09	0.341	0.0
CAST	0.295	0.0
CCcont	0.173	0.0
DS01	0.4	0.0
DS02	-0.17	0.0
DS04	0.963	0.0
DS0c	0.143	0.0
GP01	-0.014	0.0
GP02	-0.204	0.0
GP0c	-0.848	0.0
NOD	0.42	0.0
NZO	0.144	0.0
PWK	0.539	0.0
H37Rv_KO_CtpC	0.394	0.0
H37Rv_KO_CtpD	0.193	0.0
H37Rv_KO_Rv1272	0.129	0.0
H37Rv_KO_SugABC	-0.504	0.0
H37Rv_KO_MbtN	-0.057	0.0
Trans05	-0.093	0.0
macrophage_unactivated	-0.23	0.0
IL1	0.273	0.0
Rapamycin	0.325	0.0
Tcell	-0.026	0.0
GMCSF	0.061	0.0
IFNab	-0.145	0.0
IFNg	0.382	0.0
IFNg_GMCSF1	0.072	0.0
Rv1432_day32	0.828	0.0
Rv1565c_day32	-0.344	0.0
secA2_input	-0.207	0.593
delta_Rv3594	-0.054	0.0
delta_Rv3717	-0.537	0.0
delta_Rv3811	-0.522	0.0
delta_Rv0954	0.044	0.0
PonA1	0.512	0.0
EccD1_KO	-1.043	-1.595
EspI_KO	-0.841	-1.383
PE35_KO	-0.668	-1.415
PPE68_KO	-0.63	-0.71
glycerol2	0.443	0.0
lignocerate	0.75	0.0
oleate	0.339	0.0
phosphatidylcholine	0.335	0.0
acetate	0.151	0.0
glucAc	0.282	0.0
Rv0950ko	0.103	0.0
Rv1096ko	0.621	0.0
Rv3684ko	0.075	0.0
delta_otsA_trehalose	-0.155	0.0