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 Rv0414c/thiE:

update plot	correlation	link to info on gene
Rv3527/-	(cc=0.44)	info on Rv3527/-
Rv0427c/xthA	(cc=0.4275)	info on Rv0427c/xthA
Rv0553/menC	(cc=0.4155)	info on Rv0553/menC
Rv1711/-	(cc=0.4093)	info on Rv1711/-
Rv1717/-	(cc=0.4041)	info on Rv1717/-
Rv0581/vapB26	(cc=0.3926)	info on Rv0581/vapB26
Rv1982A/vapB36	(cc=0.3816)	info on Rv1982A/vapB36
Rv1149/-	(cc=0.3716)	info on Rv1149/-
Rv3039c/echA17	(cc=0.3698)	info on Rv3039c/echA17
Rv2494/vapC38	(cc=0.3632)	info on Rv2494/vapC38

Correlation of Rv0414c/thiE with Rv1711/-

Normalized LFCs for Rv0414c/thiE:
(description and provenance of datasets)

	Rv0414c/thiE	Rv1711/-
Fe_supp_jason_reseq	0.923	0.218
low_pH_jason_reseq	-0.811	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	-0.538	0.0
MHCII_jason_reseq	-0.105	0.0
Isoniazid02	0.604	0.0
Rifampicin4	1.362	0.374
Ethambutol3	0.27	0.461
Meropenem3	0.386	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.299	0.195
hypoxia_3wks	-0.327	0.0
hypoxia_6wks	3.197	0.0
glycerol	1.147	0.0
cholesterol	1.577	0.0
AJ	1.239	0.0
Bibs02	-1.123	0.0
Bibs02c	1.801	0.0
BL6	0.0	0.0
BL6a	2.197	0.0
BXD01	0.334	0.0
BXD010	1.256	0.0
BXD011	-0.157	0.0
BXD03	-0.258	0.0
BXD04	0.317	0.0
BXD05	1.67	0.0
BXD06	0.713	0.0
BXD07	0.355	0.0
BXD08	0.614	0.0
BXD09	0.798	0.0
CAST	-0.606	0.0
CCcont	-0.089	0.0
DS01	-0.45	0.0
DS02	-1.336	0.0
DS04	2.867	0.0
DS0c	-1.332	0.0
GP01	-0.607	0.0
GP02	-0.428	0.0
GP0c	-0.799	0.0
NOD	-0.428	0.0
NZO	0.512	0.0
PWK	-0.666	0.0
H37Rv_KO_CtpC	0.81	0.0
H37Rv_KO_CtpD	-0.651	0.0
H37Rv_KO_Rv1272	-0.598	0.0
H37Rv_KO_SugABC	-0.608	0.0
H37Rv_KO_MbtN	-0.061	0.103
Trans05	-0.672	0.0
macrophage_unactivated	-1.644	0.0
IL1	0.252	0.0
Rapamycin	-0.276	0.0
Tcell	-0.945	0.0
GMCSF	0.636	0.0
IFNab	0.381	0.0
IFNg	0.837	0.0
IFNg_GMCSF1	-1.26	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.234	-0.593
delta_Rv3594	0.268	-0.635
delta_Rv3717	-0.39	-1.114
delta_Rv3811	0.437	-0.501
delta_Rv0954	-1.233	-1.632
PonA1	-1.884	-0.898
EccD1_KO	1.635	0.414
EspI_KO	2.199	1.791
PE35_KO	1.272	0.0
PPE68_KO	0.512	0.0
glycerol2	-1.073	0.0
lignocerate	-0.613	0.0
oleate	-1.086	0.0
phosphatidylcholine	-1.073	0.0
acetate	-1.044	0.0
glucAc	0.451	0.0
Rv0950ko	1.122	0.416
Rv1096ko	0.92	0.793
Rv3684ko	3.134	0.452
delta_otsA_trehalose	0.0	-0.122