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 Rv0060/-:

update plot	correlation	link to info on gene
Rv2219/-	(cc=0.5267)	info on Rv2219/-
Rv0945/-	(cc=0.526)	info on Rv0945/-
Rv3819/-	(cc=0.5134)	info on Rv3819/-
Rv2237/-	(cc=0.5052)	info on Rv2237/-
Rv3224B/-	(cc=0.5046)	info on Rv3224B/-
Rv3224A/-	(cc=0.5002)	info on Rv3224A/-
Rv0312/-	(cc=0.4982)	info on Rv0312/-
Rv1987/-	(cc=0.4959)	info on Rv1987/-
Rv0887c/-	(cc=0.486)	info on Rv0887c/-
Rv3217c/-	(cc=0.4839)	info on Rv3217c/-

Correlation of Rv0060/- with Rv0945/-

Normalized LFCs for Rv0060/-:
(description and provenance of datasets)

	Rv0060/-	Rv0945/-
Fe_supp_jason_reseq	0.391	-1.432
low_pH_jason_reseq	-1.134	0.216
NO_jason_reseq	0.0	-1.769
B6_jason_reseq	0.0	-2.038
MHCII_jason_reseq	0.085	-0.851
Isoniazid02	0.263	-0.141
Rifampicin4	0.712	-0.449
Ethambutol3	0.505	-0.479
Meropenem3	0.662	-0.285
Vancomycin16	0.48	0.318
Rv2680_day32	-0.554	0.896
H37Rv_KO_MarP	0.35	0.265
hypoxia_3wks	-0.606	-2.333
hypoxia_6wks	0.146	-1.979
glycerol	0.222	2.127
cholesterol	0.0	-0.647
AJ	0.131	-0.881
Bibs02	-1.123	-1.592
Bibs02c	0.629	-1.085
BL6	0.53	0.723
BL6a	0.595	-0.626
BXD01	0.905	1.029
BXD010	-0.543	-0.486
BXD011	0.268	-0.569
BXD03	0.52	-0.92
BXD04	-0.325	0.426
BXD05	0.216	-0.602
BXD06	0.342	0.059
BXD07	0.0	-0.064
BXD08	0.0	1.986
BXD09	-0.173	-0.36
CAST	0.976	-1.373
CCcont	1.498	2.31
DS01	-0.45	0.205
DS02	1.235	0.364
DS04	0.312	-0.613
DS0c	-0.737	-1.672
GP01	0.056	1.651
GP02	-0.283	-0.213
GP0c	0.942	0.718
NOD	0.0	-1.339
NZO	0.6	-1.357
PWK	0.905	-1.169
H37Rv_KO_CtpC	0.977	2.408
H37Rv_KO_CtpD	0.989	-0.976
H37Rv_KO_Rv1272	0.227	0.778
H37Rv_KO_SugABC	0.877	-0.376
H37Rv_KO_MbtN	-0.633	-0.614
Trans05	-0.554	0.611
macrophage_unactivated	1.531	2.326
IL1	-0.297	-0.78
Rapamycin	0.0	-0.807
Tcell	1.352	2.63
GMCSF	-0.264	-0.694
IFNab	0.0	0.0
IFNg	-0.551	-0.703
IFNg_GMCSF1	-0.314	1.012
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.218	0.0
secA2_input	0.812	-0.247
delta_Rv3594	0.961	0.369
delta_Rv3717	1.851	-0.174
delta_Rv3811	1.335	0.805
delta_Rv0954	0.0	1.455
PonA1	-0.245	0.212
EccD1_KO	0.582	0.25
EspI_KO	-0.787	1.777
PE35_KO	-0.589	0.0
PPE68_KO	-1.133	0.586
glycerol2	1.964	3.113
lignocerate	2.404	3.78
oleate	-0.688	-0.829
phosphatidylcholine	1.909	2.899
acetate	2.128	4.666
glucAc	1.868	3.978
Rv0950ko	0.639	-0.09
Rv1096ko	1.194	0.0
Rv3684ko	0.0	-0.96
delta_otsA_trehalose	0.366	0.0