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 Rv3804c/fbpA:

update plot	correlation	link to info on gene
Rv1096/-	(cc=0.5375)	info on Rv1096/-
Rv0456B/mazE1	(cc=0.4809)	info on Rv0456B/mazE1
Rv3682/ponA2	(cc=0.4708)	info on Rv3682/ponA2
Rv0160c/PE4	(cc=0.4418)	info on Rv0160c/PE4
Rv1068c/PE_PGRS20	(cc=0.4405)	info on Rv1068c/PE_PGRS20
Rv0231/fadE4	(cc=0.438)	info on Rv0231/fadE4
Rv3524/-	(cc=0.4362)	info on Rv3524/-
Rv1887/-	(cc=0.4301)	info on Rv1887/-
Rv2594c/ruvC	(cc=0.4282)	info on Rv2594c/ruvC
Rv3630/-	(cc=0.4263)	info on Rv3630/-

Correlation of Rv3804c/fbpA with Rv2594c/ruvC

Normalized LFCs for Rv3804c/fbpA:
(description and provenance of datasets)

	Rv3804c/fbpA	Rv2594c/ruvC
Fe_supp_jason_reseq	0.923	0.218
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-2.74	-0.351
Rifampicin4	-3.355	-1.026
Ethambutol3	-2.653	-0.461
Meropenem3	-2.903	-0.289
Vancomycin16	-3.953	-1.005
Rv2680_day32	-0.704	0.0
H37Rv_KO_MarP	-0.26	0.0
hypoxia_3wks	0.459	0.0
hypoxia_6wks	0.464	0.0
glycerol	0.554	0.0
cholesterol	0.145	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.125	0.0
BL6a	0.198	0.0
BXD01	0.8	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.138	0.0
BXD08	0.564	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	2.164	0.733
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.533	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.272	0.0
H37Rv_KO_MbtN	0.103	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-0.18	0.0
Rv1565c_day32	1.21	0.0
secA2_input	-0.945	0.412
delta_Rv3594	0.0	0.211
delta_Rv3717	-2.289	0.0
delta_Rv3811	-0.122	0.0
delta_Rv0954	-0.319	0.99
PonA1	1.219	0.304
EccD1_KO	-2.319	0.0
EspI_KO	-0.713	-0.394
PE35_KO	-0.963	0.703
PPE68_KO	-1.328	0.0
glycerol2	-1.104	0.0
lignocerate	-1.128	0.0
oleate	-1.313	0.0
phosphatidylcholine	-1.297	0.0
acetate	0.843	0.63
glucAc	1.218	0.0
Rv0950ko	4.568	0.38
Rv1096ko	-6.0	0.38
Rv3684ko	0.531	0.789
delta_otsA_trehalose	1.197	1.482