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 Rv2446c/-

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

	Rv0626/vapB5	Rv2446c/-
Fe_supp_jason_reseq	1.264	0.396
low_pH_jason_reseq	-0.472	0.746
NO_jason_reseq	-1.05	0.711
B6_jason_reseq	0.579	-0.028
MHCII_jason_reseq	-2.098	0.417
Isoniazid02	0.08	-0.761
Rifampicin4	1.067	-0.206
Ethambutol3	0.0	-0.201
Meropenem3	0.497	0.026
Vancomycin16	0.358	0.393
Rv2680_day32	0.0	0.614
H37Rv_KO_MarP	-1.352	0.148
hypoxia_3wks	0.997	0.052
hypoxia_6wks	-0.299	-0.706
glycerol	0.426	1.606
cholesterol	0.997	0.532
AJ	0.928	2.25
Bibs02	-0.581	0.498
Bibs02c	-1.625	0.844
BL6	1.436	1.259
BL6a	0.136	0.36
BXD01	-0.327	0.494
BXD010	0.581	0.502
BXD011	-0.053	0.663
BXD03	0.559	0.196
BXD04	-0.263	0.555
BXD05	0.713	1.522
BXD06	-0.579	0.615
BXD07	0.544	1.112
BXD08	0.092	0.232
BXD09	-0.073	0.731
CAST	-0.023	-0.02
CCcont	-0.062	-0.251
DS01	0.556	0.325
DS02	-0.358	0.443
DS04	0.096	1.397
DS0c	0.022	0.379
GP01	-1.056	-0.26
GP02	-0.964	1.363
GP0c	-0.757	-0.545
NOD	-0.714	-0.828
NZO	1.841	0.984
PWK	0.313	1.638
H37Rv_KO_CtpC	-1.932	-0.014
H37Rv_KO_CtpD	-2.17	0.665
H37Rv_KO_Rv1272	-0.612	1.323
H37Rv_KO_SugABC	1.871	1.913
H37Rv_KO_MbtN	-1.293	0.475
Trans05	0.567	0.247
macrophage_unactivated	-0.527	0.199
IL1	0.679	1.109
Rapamycin	-0.436	-0.448
Tcell	-0.629	-0.14
GMCSF	1.465	0.375
IFNab	0.033	-0.033
IFNg	1.419	0.866
IFNg_GMCSF1	0.405	0.77
Rv1432_day32	0.0	0.095
Rv1565c_day32	-0.218	-0.523
secA2_input	0.233	0.463
delta_Rv3594	1.53	0.075
delta_Rv3717	0.159	0.206
delta_Rv3811	-0.683	-0.193
delta_Rv0954	0.736	0.283
PonA1	2.05	0.839
EccD1_KO	1.385	-0.437
EspI_KO	0.271	-0.066
PE35_KO	-2.99	-1.068
PPE68_KO	-1.353	-1.414
glycerol2	-0.605	-2.484
lignocerate	0.475	-1.796
oleate	-3.595	-1.096
phosphatidylcholine	-0.854	-1.125
acetate	0.381	-0.397
glucAc	0.302	-1.45
Rv0950ko	-1.737	-0.823
Rv1096ko	-0.419	0.175
Rv3684ko	-0.668	-0.403
delta_otsA_trehalose	0.366	-1.613