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 Rv2481c/-:

update plot	correlation	link to info on gene
Rv2833c/ugpB	(cc=0.6002)	info on Rv2833c/ugpB
Rv3628/ppa	(cc=0.5758)	info on Rv3628/ppa
Rv0055/rpsR1	(cc=0.565)	info on Rv0055/rpsR1
Rv1765A/-	(cc=0.524)	info on Rv1765A/-
Rv3126c/-	(cc=0.5112)	info on Rv3126c/-
Rv2456c/-	(cc=0.5091)	info on Rv2456c/-
Rv0371c/-	(cc=0.5061)	info on Rv0371c/-
Rv2777c/-	(cc=0.5056)	info on Rv2777c/-
Rv0188/-	(cc=0.5018)	info on Rv0188/-
Rv2452c/-	(cc=0.4941)	info on Rv2452c/-

Correlation of Rv2481c/- with Rv3628/ppa

Normalized LFCs for Rv2481c/-:
(description and provenance of datasets)

	Rv2481c/-	Rv3628/ppa
Fe_supp_jason_reseq	0.434	0.35
low_pH_jason_reseq	-0.092	-0.44
NO_jason_reseq	-0.593	0.205
B6_jason_reseq	-0.233	-0.941
MHCII_jason_reseq	-0.51	-0.829
Isoniazid02	0.351	1.681
Rifampicin4	0.024	-0.785
Ethambutol3	0.214	0.602
Meropenem3	0.055	-0.55
Vancomycin16	0.703	-0.178
Rv2680_day32	0.682	0.0
H37Rv_KO_MarP	-0.497	0.26
hypoxia_3wks	0.08	0.0
hypoxia_6wks	0.921	-0.464
glycerol	0.159	0.992
cholesterol	0.442	0.145
AJ	0.321	0.0
Bibs02	-1.599	0.0
Bibs02c	0.573	0.0
BL6	1.853	1.812
BL6a	1.821	1.329
BXD01	0.866	1.01
BXD010	1.509	0.928
BXD011	1.004	0.707
BXD03	1.65	1.849
BXD04	0.4	0.896
BXD05	1.885	1.497
BXD06	1.123	1.221
BXD07	1.091	0.929
BXD08	1.263	0.564
BXD09	1.301	0.78
CAST	0.659	0.0
CCcont	1.896	1.955
DS01	-0.161	0.0
DS02	0.663	0.0
DS04	-1.81	0.0
DS0c	0.347	0.0
GP01	0.995	2.386
GP02	1.273	0.409
GP0c	0.217	2.341
NOD	0.407	0.0
NZO	-0.049	0.0
PWK	0.804	0.0
H37Rv_KO_CtpC	0.701	0.0
H37Rv_KO_CtpD	-1.316	0.0
H37Rv_KO_Rv1272	1.848	0.693
H37Rv_KO_SugABC	-1.683	0.099
H37Rv_KO_MbtN	0.09	0.0
Trans05	1.478	0.0
macrophage_unactivated	0.445	-0.211
IL1	0.478	0.546
Rapamycin	0.359	0.196
Tcell	0.342	-0.218
GMCSF	0.19	1.053
IFNab	0.366	-0.203
IFNg	0.182	0.93
IFNg_GMCSF1	0.201	-0.211
Rv1432_day32	0.013	0.0
Rv1565c_day32	-0.142	0.0
secA2_input	-0.509	-0.412
delta_Rv3594	0.031	-2.424
delta_Rv3717	-1.226	-2.47
delta_Rv3811	-0.415	-1.782
delta_Rv0954	-0.849	-1.66
PonA1	-0.911	-2.266
EccD1_KO	0.635	0.286
EspI_KO	0.508	-0.265
PE35_KO	0.691	1.706
PPE68_KO	0.781	0.793
glycerol2	1.184	0.369
lignocerate	1.4	1.218
oleate	0.388	0.0
phosphatidylcholine	1.066	0.95
acetate	0.894	1.662
glucAc	0.948	1.638
Rv0950ko	0.434	-0.582
Rv1096ko	-0.163	0.513
Rv3684ko	0.252	0.193
delta_otsA_trehalose	0.873	0.0