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 Rv0861c/ercc3:

update plot	correlation	link to info on gene
Rv1324/-	(cc=0.5465)	info on Rv1324/-
Rv2169c/-	(cc=0.5449)	info on Rv2169c/-
Rv1638/uvrA	(cc=0.5351)	info on Rv1638/uvrA
Rv2518c/ldtB	(cc=0.5333)	info on Rv2518c/ldtB
Rv2535c/pepQ	(cc=0.51)	info on Rv2535c/pepQ
Rv2179c/-	(cc=0.5092)	info on Rv2179c/-
Rv1432/-	(cc=0.5023)	info on Rv1432/-
Rv0150c/-	(cc=0.4831)	info on Rv0150c/-
Rv2700/-	(cc=0.4696)	info on Rv2700/-
Rv1298/rpmE	(cc=0.4657)	info on Rv1298/rpmE

Correlation of Rv0861c/ercc3 with Rv2518c/ldtB

Normalized LFCs for Rv0861c/ercc3:
(description and provenance of datasets)

	Rv0861c/ercc3	Rv2518c/ldtB
Fe_supp_jason_reseq	0.423	0.0
low_pH_jason_reseq	-0.055	0.0
NO_jason_reseq	0.633	0.0
B6_jason_reseq	-1.039	0.0
MHCII_jason_reseq	1.426	0.0
Isoniazid02	0.419	0.0
Rifampicin4	-0.125	0.0
Ethambutol3	0.551	0.168
Meropenem3	-0.386	0.0
Vancomycin16	0.04	0.0
Rv2680_day32	0.922	0.0
H37Rv_KO_MarP	0.025	1.242
hypoxia_3wks	-0.471	-0.502
hypoxia_6wks	-0.658	-0.549
glycerol	0.891	0.992
cholesterol	0.663	0.398
AJ	0.392	0.0
Bibs02	-1.142	0.0
Bibs02c	-0.056	0.0
BL6	0.343	0.0
BL6a	0.544	0.0
BXD01	0.458	0.0
BXD010	0.73	0.0
BXD011	0.819	0.0
BXD03	0.035	0.0
BXD04	0.124	0.0
BXD05	0.846	0.0
BXD06	0.283	0.0
BXD07	0.68	0.0
BXD08	1.202	0.133
BXD09	0.904	0.0
CAST	0.389	0.0
CCcont	0.607	0.633
DS01	0.695	0.0
DS02	0.414	0.0
DS04	0.492	0.0
DS0c	0.46	0.0
GP01	-0.026	0.0
GP02	1.011	0.083
GP0c	0.659	0.0
NOD	-0.452	0.0
NZO	0.15	0.0
PWK	0.689	0.0
H37Rv_KO_CtpC	1.259	0.162
H37Rv_KO_CtpD	1.029	0.0
H37Rv_KO_Rv1272	0.804	0.0
H37Rv_KO_SugABC	0.678	0.0
H37Rv_KO_MbtN	1.438	0.0
Trans05	0.894	0.0
macrophage_unactivated	1.111	0.0
IL1	0.899	0.0
Rapamycin	0.531	0.0
Tcell	1.069	0.0
GMCSF	0.734	0.0
IFNab	0.269	0.0
IFNg	0.676	0.0
IFNg_GMCSF1	1.471	0.0
Rv1432_day32	-0.42	0.0
Rv1565c_day32	1.461	0.0
secA2_input	0.448	0.202
delta_Rv3594	1.054	0.0
delta_Rv3717	1.516	-0.331
delta_Rv3811	1.304	-0.187
delta_Rv0954	1.027	-0.34
PonA1	-0.338	-0.145
EccD1_KO	0.73	-0.73
EspI_KO	0.248	0.285
PE35_KO	1.706	2.765
PPE68_KO	1.609	2.678
glycerol2	-0.64	-1.328
lignocerate	-0.257	-0.712
oleate	-0.906	-2.032
phosphatidylcholine	-0.857	-0.934
acetate	-0.49	-0.843
glucAc	-0.328	-1.481
Rv0950ko	-1.167	-2.044
Rv1096ko	-0.908	-1.632
Rv3684ko	-0.527	-0.305
delta_otsA_trehalose	0.122	1.294