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 Rv1086/-:

update plot	correlation	link to info on gene
Rv1836c/-	(cc=0.6417)	info on Rv1836c/-
Rv1821/secA2	(cc=0.5927)	info on Rv1821/secA2
Rv2553c/-	(cc=0.5752)	info on Rv2553c/-
Rv3101c/ftsX	(cc=0.5733)	info on Rv3101c/ftsX
Rv2166c/-	(cc=0.5564)	info on Rv2166c/-
Rv3207c/-	(cc=0.5466)	info on Rv3207c/-
Rv2224c/caeA	(cc=0.539)	info on Rv2224c/caeA
Rv3671c/-	(cc=0.5219)	info on Rv3671c/-
Rv3810/pirG	(cc=0.5199)	info on Rv3810/pirG
Rv2507/-	(cc=0.5187)	info on Rv2507/-

Correlation of Rv1086/- with Rv2507/-

Normalized LFCs for Rv1086/-:
(description and provenance of datasets)

	Rv1086/-	Rv2507/-
Fe_supp_jason_reseq	-0.508	0.218
low_pH_jason_reseq	0.694	0.0
NO_jason_reseq	-0.845	0.0
B6_jason_reseq	-0.649	0.0
MHCII_jason_reseq	-0.572	0.0
Isoniazid02	-0.281	0.0
Rifampicin4	-1.836	0.0
Ethambutol3	-0.505	0.32
Meropenem3	-0.648	0.0
Vancomycin16	-1.799	0.0
Rv2680_day32	-0.239	0.0
H37Rv_KO_MarP	-2.368	-2.55
hypoxia_3wks	-2.568	0.0
hypoxia_6wks	-0.672	0.0
glycerol	-0.654	0.0
cholesterol	1.367	0.0
AJ	-0.983	0.0
Bibs02	-0.775	0.0
Bibs02c	-0.887	0.0
BL6	-0.53	0.0
BL6a	-0.839	0.0
BXD01	-0.552	0.0
BXD010	-0.543	0.0
BXD011	-0.54	0.0
BXD03	-0.315	0.0
BXD04	-0.4	0.0
BXD05	-0.57	0.0
BXD06	-0.566	0.0
BXD07	-0.587	0.0
BXD08	-0.564	0.0
BXD09	-0.596	0.0
CAST	-0.976	0.0
CCcont	2.055	0.0
DS01	-1.001	0.0
DS02	-0.922	0.0
DS04	-0.141	0.0
DS0c	-0.919	0.0
GP01	-0.418	0.0
GP02	-0.353	0.0
GP0c	-0.303	0.0
NOD	-0.952	0.0
NZO	-0.845	0.0
PWK	-0.831	0.0
H37Rv_KO_CtpC	-0.242	0.0
H37Rv_KO_CtpD	-0.092	0.0
H37Rv_KO_Rv1272	-0.598	0.0
H37Rv_KO_SugABC	0.245	0.0
H37Rv_KO_MbtN	0.069	0.103
Trans05	-0.554	0.0
macrophage_unactivated	-0.638	0.0
IL1	-1.05	0.0
Rapamycin	-0.402	0.0
Tcell	0.0	0.0
GMCSF	-0.346	0.0
IFNab	0.363	0.0
IFNg	0.163	0.0
IFNg_GMCSF1	-0.635	0.0
Rv1432_day32	-0.18	0.0
Rv1565c_day32	-0.766	0.0
secA2_input	-4.12	-1.565
delta_Rv3594	1.277	0.532
delta_Rv3717	2.139	0.159
delta_Rv3811	1.396	0.358
delta_Rv0954	-2.35	-0.178
PonA1	-2.984	0.0
EccD1_KO	0.76	0.73
EspI_KO	1.024	1.184
PE35_KO	-1.397	1.467
PPE68_KO	-0.205	1.609
glycerol2	-0.594	0.0
lignocerate	-2.541	0.0
oleate	-1.815	0.0
phosphatidylcholine	-2.762	0.0
acetate	0.181	0.0
glucAc	0.362	0.0
Rv0950ko	-3.86	-1.348
Rv1096ko	2.796	0.793
Rv3684ko	1.29	1.117
delta_otsA_trehalose	0.193	-0.079