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 Rv2112c/dop:

update plot	correlation	link to info on gene
Rv2115c/mpa	(cc=0.57)	info on Rv2115c/mpa
Rv2097c/pafA	(cc=0.5522)	info on Rv2097c/pafA
Rv2844/-	(cc=0.5356)	info on Rv2844/-
Rv3035/-	(cc=0.52)	info on Rv3035/-
Rv0412c/-	(cc=0.5046)	info on Rv0412c/-
Rv0410c/pknG	(cc=0.4829)	info on Rv0410c/pknG
Rv3603c/-	(cc=0.4792)	info on Rv3603c/-
Rv0411c/glnH	(cc=0.4783)	info on Rv0411c/glnH
Rv2239c/-	(cc=0.474)	info on Rv2239c/-
Rv1685c/-	(cc=0.4737)	info on Rv1685c/-

Correlation of Rv2112c/dop with Rv2115c/mpa

Normalized LFCs for Rv2112c/dop:
(description and provenance of datasets)

	Rv2112c/dop	Rv2115c/mpa
Fe_supp_jason_reseq	-0.101	0.766
low_pH_jason_reseq	0.296	0.0
NO_jason_reseq	0.315	0.0
B6_jason_reseq	1.913	0.0
MHCII_jason_reseq	0.326	0.0
Isoniazid02	0.084	0.953
Rifampicin4	0.59	-0.149
Ethambutol3	-0.27	-1.608
Meropenem3	0.461	-2.01
Vancomycin16	1.525	1.252
Rv2680_day32	-0.339	0.0
H37Rv_KO_MarP	-2.083	-2.406
hypoxia_3wks	-1.216	0.0
hypoxia_6wks	0.403	0.0
glycerol	0.908	0.0
cholesterol	0.959	0.0
AJ	1.22	0.0
Bibs02	0.917	0.0
Bibs02c	0.0	0.0
BL6	-0.555	0.0
BL6a	-0.88	0.0
BXD01	-0.66	0.0
BXD010	-0.649	0.0
BXD011	-0.824	0.35
BXD03	-0.98	0.0
BXD04	-0.999	0.0
BXD05	-1.21	0.0
BXD06	-1.2	0.0
BXD07	-1.003	0.0
BXD08	-1.196	0.0
BXD09	-1.135	0.0
CAST	0.0	0.0
CCcont	0.275	2.042
DS01	0.352	0.0
DS02	1.345	0.0
DS04	0.659	0.37
DS0c	0.976	0.0
GP01	0.0	0.099
GP02	0.603	0.353
GP0c	0.239	0.0
NOD	-0.617	0.0
NZO	0.735	0.0
PWK	0.61	0.0
H37Rv_KO_CtpC	0.688	0.0
H37Rv_KO_CtpD	-0.642	0.537
H37Rv_KO_Rv1272	-0.181	0.0
H37Rv_KO_SugABC	-0.221	0.099
H37Rv_KO_MbtN	-0.458	0.196
Trans05	1.853	0.131
macrophage_unactivated	-0.947	0.0
IL1	-0.89	0.0
Rapamycin	-0.921	0.0
Tcell	-0.303	0.0
GMCSF	0.85	0.0
IFNab	-0.583	0.0
IFNg	1.227	0.0
IFNg_GMCSF1	0.534	0.0
Rv1432_day32	0.043	0.0
Rv1565c_day32	0.111	0.0
secA2_input	0.816	0.017
delta_Rv3594	-1.276	0.369
delta_Rv3717	-1.951	-0.174
delta_Rv3811	-2.019	0.187
delta_Rv0954	0.916	4.133
PonA1	2.463	5.436
EccD1_KO	-0.73	-0.549
EspI_KO	-0.411	0.493
PE35_KO	2.441	4.25
PPE68_KO	2.678	3.561
glycerol2	0.161	0.0
lignocerate	0.27	0.0
oleate	-0.373	0.0
phosphatidylcholine	0.0	0.0
acetate	0.535	0.437
glucAc	0.762	0.701
Rv0950ko	-1.462	-1.842
Rv1096ko	-2.045	-4.189
Rv3684ko	-0.93	-1.055
delta_otsA_trehalose	0.041	-0.374