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 Rv0925c/-:

update plot	correlation	link to info on gene
Rv3291c/lrpA	(cc=0.536)	info on Rv3291c/lrpA
Rv0811c/-	(cc=0.4989)	info on Rv0811c/-
Rv3852/hns	(cc=0.4868)	info on Rv3852/hns
Rv3162c/-	(cc=0.4821)	info on Rv3162c/-
Rv1545/-	(cc=0.4746)	info on Rv1545/-
Rv3233c/-	(cc=0.4632)	info on Rv3233c/-
Rv3566c/nat	(cc=0.4545)	info on Rv3566c/nat
Rv1419/-	(cc=0.4473)	info on Rv1419/-
Rv0908/ctpE	(cc=0.446)	info on Rv0908/ctpE
Rv1125/-	(cc=0.4454)	info on Rv1125/-

Correlation of Rv0925c/- with Rv0811c/-

Normalized LFCs for Rv0925c/-:
(description and provenance of datasets)

	Rv0925c/-	Rv0811c/-
Fe_supp_jason_reseq	-0.339	0.0
low_pH_jason_reseq	0.445	0.0
NO_jason_reseq	0.045	0.0
B6_jason_reseq	0.55	0.0
MHCII_jason_reseq	-0.339	0.0
Isoniazid02	-1.323	0.0
Rifampicin4	-0.06	0.0
Ethambutol3	-1.096	0.0
Meropenem3	-1.051	0.0
Vancomycin16	-0.692	0.0
Rv2680_day32	0.141	0.0
H37Rv_KO_MarP	0.514	0.371
hypoxia_3wks	-0.574	0.0
hypoxia_6wks	-0.365	0.0
glycerol	-0.696	0.0
cholesterol	-0.09	0.0
AJ	-0.166	0.0
Bibs02	0.195	0.0
Bibs02c	0.062	0.0
BL6	0.686	0.0
BL6a	0.125	0.0
BXD01	0.082	0.0
BXD010	-0.529	0.0
BXD011	-0.221	0.0
BXD03	-0.22	0.0
BXD04	-0.171	0.0
BXD05	-0.283	0.0
BXD06	-0.205	0.0
BXD07	-0.024	0.0
BXD08	-0.272	0.0
BXD09	-0.451	0.0
CAST	-0.153	0.0
CCcont	-0.229	0.0
DS01	-0.051	0.0
DS02	0.29	0.0
DS04	0.153	0.0
DS0c	-0.126	0.0
GP01	-0.795	0.0
GP02	-0.952	0.0
GP0c	-0.942	0.0
NOD	0.465	0.0
NZO	0.051	0.0
PWK	0.661	0.0
H37Rv_KO_CtpC	-1.017	0.0
H37Rv_KO_CtpD	-0.548	0.127
H37Rv_KO_Rv1272	0.965	0.598
H37Rv_KO_SugABC	0.709	0.0
H37Rv_KO_MbtN	-0.018	0.0
Trans05	0.512	0.876
macrophage_unactivated	0.167	0.0
IL1	-0.021	0.0
Rapamycin	-0.083	0.0
Tcell	-0.179	0.0
GMCSF	0.259	0.0
IFNab	-0.541	0.0
IFNg	0.227	0.0
IFNg_GMCSF1	0.308	0.0
Rv1432_day32	-0.113	0.0
Rv1565c_day32	0.417	0.0
secA2_input	0.473	0.157
delta_Rv3594	-0.413	-1.014
delta_Rv3717	-0.613	-1.165
delta_Rv3811	-0.706	-1.377
delta_Rv0954	-0.178	-1.196
PonA1	-0.105	-1.069
EccD1_KO	0.408	0.0
EspI_KO	0.431	0.0
PE35_KO	0.84	0.0
PPE68_KO	0.595	0.0
glycerol2	-0.439	0.0
lignocerate	-0.028	0.0
oleate	-0.197	0.0
phosphatidylcholine	-0.399	0.0
acetate	-0.618	0.0
glucAc	-0.504	0.0
Rv0950ko	0.202	0.0
Rv1096ko	1.782	2.045
Rv3684ko	1.179	2.22
delta_otsA_trehalose	0.202	0.0