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 Rv0626/vapB5:

update plot	correlation	link to info on gene
Rv2468A/-	(cc=0.398)	info on Rv2468A/-
Rv1003/-	(cc=0.3757)	info on Rv1003/-
Rv3208/-	(cc=0.3714)	info on Rv3208/-
Rv0328/-	(cc=0.3651)	info on Rv0328/-
Rv1082/mca	(cc=0.3574)	info on Rv1082/mca
Rv0116c/ldtA	(cc=0.3547)	info on Rv0116c/ldtA
Rv2927c/-	(cc=0.3416)	info on Rv2927c/-
Rv2446c/-	(cc=0.3343)	info on Rv2446c/-
Rv0345/-	(cc=0.3315)	info on Rv0345/-
Rv2835c/ugpA	(cc=0.32)	info on Rv2835c/ugpA

Correlation of Rv0626/vapB5 with Rv3208/-

Normalized LFCs for Rv0626/vapB5:
(description and provenance of datasets)

	Rv0626/vapB5	Rv3208/-
Fe_supp_jason_reseq	1.264	4.191
low_pH_jason_reseq	-0.472	0.0
NO_jason_reseq	-1.05	0.0
B6_jason_reseq	0.579	0.0
MHCII_jason_reseq	-2.098	0.0
Isoniazid02	0.08	0.0
Rifampicin4	1.067	0.0
Ethambutol3	0.0	0.0
Meropenem3	0.497	0.0
Vancomycin16	0.358	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.352	-1.705
hypoxia_3wks	0.997	-0.55
hypoxia_6wks	-0.299	-0.288
glycerol	0.426	0.0
cholesterol	0.997	0.0
AJ	0.928	0.0
Bibs02	-0.581	0.0
Bibs02c	-1.625	0.0
BL6	1.436	0.768
BL6a	0.136	0.0
BXD01	-0.327	0.0
BXD010	0.581	0.352
BXD011	-0.053	0.35
BXD03	0.559	0.0
BXD04	-0.263	0.0
BXD05	0.713	0.135
BXD06	-0.579	0.0
BXD07	0.544	0.0
BXD08	0.092	0.0
BXD09	-0.073	0.0
CAST	-0.023	0.0
CCcont	-0.062	1.43
DS01	0.556	0.0
DS02	-0.358	0.0
DS04	0.096	0.682
DS0c	0.022	0.0
GP01	-1.056	0.0
GP02	-0.964	0.0
GP0c	-0.757	0.357
NOD	-0.714	0.0
NZO	1.841	0.0
PWK	0.313	0.0
H37Rv_KO_CtpC	-1.932	0.0
H37Rv_KO_CtpD	-2.17	0.0
H37Rv_KO_Rv1272	-0.612	0.141
H37Rv_KO_SugABC	1.871	0.348
H37Rv_KO_MbtN	-1.293	0.196
Trans05	0.567	0.131
macrophage_unactivated	-0.527	0.398
IL1	0.679	0.374
Rapamycin	-0.436	1.068
Tcell	-0.629	0.0
GMCSF	1.465	0.333
IFNab	0.033	0.729
IFNg	1.419	0.93
IFNg_GMCSF1	0.405	0.396
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.218	0.0
secA2_input	0.233	-1.368
delta_Rv3594	1.53	1.487
delta_Rv3717	0.159	1.223
delta_Rv3811	-0.683	-0.171
delta_Rv0954	0.736	-0.149
PonA1	2.05	-0.204
EccD1_KO	1.385	-1.204
EspI_KO	0.271	0.0
PE35_KO	-2.99	-2.981
PPE68_KO	-1.353	-2.742
glycerol2	-0.605	-0.82
lignocerate	0.475	-0.712
oleate	-3.595	-0.829
phosphatidylcholine	-0.854	-0.819
acetate	0.381	-0.973
glucAc	0.302	-0.605
Rv0950ko	-1.737	0.311
Rv1096ko	-0.419	-0.513
Rv3684ko	-0.668	0.17
delta_otsA_trehalose	0.366	0.0