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 Rv2169c/-

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

	Rv0861c/ercc3	Rv2169c/-
Fe_supp_jason_reseq	0.423	0.923
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	0.135
Isoniazid02	0.419	-0.796
Rifampicin4	-0.125	-2.134
Ethambutol3	0.551	-0.958
Meropenem3	-0.386	-1.109
Vancomycin16	0.04	-2.457
Rv2680_day32	0.922	0.0
H37Rv_KO_MarP	0.025	-0.288
hypoxia_3wks	-0.471	-0.502
hypoxia_6wks	-0.658	-0.549
glycerol	0.891	0.0
cholesterol	0.663	0.0
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	0.358
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	0.138
BXD08	1.202	0.0
BXD09	0.904	0.14
CAST	0.389	0.0
CCcont	0.607	0.149
DS01	0.695	0.236
DS02	0.414	0.0
DS04	0.492	0.0
DS0c	0.46	0.217
GP01	-0.026	0.0
GP02	1.011	0.0
GP0c	0.659	0.0
NOD	-0.452	0.225
NZO	0.15	0.0
PWK	0.689	0.0
H37Rv_KO_CtpC	1.259	0.0
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	0.45
GMCSF	0.734	0.0
IFNab	0.269	0.795
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	-1.832
delta_Rv3594	1.054	0.119
delta_Rv3717	1.516	-1.067
delta_Rv3811	1.304	-0.122
delta_Rv0954	1.027	-1.096
PonA1	-0.338	0.0
EccD1_KO	0.73	0.454
EspI_KO	0.248	1.668
PE35_KO	1.706	3.856
PPE68_KO	1.609	3.2
glycerol2	-0.64	-6.0
lignocerate	-0.257	-3.238
oleate	-0.906	-6.0
phosphatidylcholine	-0.857	-4.014
acetate	-0.49	-1.699
glucAc	-0.328	-2.833
Rv0950ko	-1.167	-1.701
Rv1096ko	-0.908	-2.31
Rv3684ko	-0.527	-0.75
delta_otsA_trehalose	0.122	0.27