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 Rv0587/yrbE2A:

update plot	correlation	link to info on gene
Rv3104c/-	(cc=0.4378)	info on Rv3104c/-
Rv1700/-	(cc=0.4359)	info on Rv1700/-
Rv3565/aspB	(cc=0.4289)	info on Rv3565/aspB
Rv3690/-	(cc=0.4279)	info on Rv3690/-
Rv2926c/-	(cc=0.4159)	info on Rv2926c/-
Rv2857c/-	(cc=0.4099)	info on Rv2857c/-
Rv0059/-	(cc=0.4045)	info on Rv0059/-
Rv3710/leuA	(cc=0.4041)	info on Rv3710/leuA
Rv0246/-	(cc=0.4033)	info on Rv0246/-
Rv0231/fadE4	(cc=0.4005)	info on Rv0231/fadE4

Correlation of Rv0587/yrbE2A with Rv3104c/-

Normalized LFCs for Rv0587/yrbE2A:
(description and provenance of datasets)

	Rv0587/yrbE2A	Rv3104c/-
Fe_supp_jason_reseq	1.25	1.44
low_pH_jason_reseq	-1.016	-0.574
NO_jason_reseq	0.221	-0.704
B6_jason_reseq	0.735	-0.434
MHCII_jason_reseq	0.082	0.884
Isoniazid02	0.02	0.127
Rifampicin4	-1.162	0.192
Ethambutol3	-0.291	-0.592
Meropenem3	-0.829	0.458
Vancomycin16	-0.186	-0.175
Rv2680_day32	1.005	-0.354
H37Rv_KO_MarP	0.404	0.765
hypoxia_3wks	0.786	1.188
hypoxia_6wks	1.714	1.566
glycerol	-0.051	0.278
cholesterol	-0.651	-0.34
AJ	-0.089	-0.445
Bibs02	-0.558	-0.16
Bibs02c	0.912	-0.42
BL6	1.175	0.101
BL6a	0.466	0.344
BXD01	0.976	0.493
BXD010	0.651	0.367
BXD011	1.845	0.358
BXD03	-0.531	0.073
BXD04	0.175	1.237
BXD05	0.458	1.169
BXD06	0.174	0.24
BXD07	0.497	0.855
BXD08	1.084	0.73
BXD09	0.302	0.447
CAST	0.14	-0.384
CCcont	-1.348	0.608
DS01	-0.029	-0.226
DS02	0.931	0.287
DS04	-1.871	-0.829
DS0c	1.068	0.679
GP01	0.876	-0.313
GP02	-0.342	-0.321
GP0c	1.175	0.359
NOD	-0.4	0.905
NZO	0.049	0.027
PWK	0.119	0.081
H37Rv_KO_CtpC	1.663	0.723
H37Rv_KO_CtpD	-0.304	1.029
H37Rv_KO_Rv1272	0.579	-0.168
H37Rv_KO_SugABC	-0.147	0.33
H37Rv_KO_MbtN	0.652	0.11
Trans05	-0.377	0.131
macrophage_unactivated	2.506	0.464
IL1	0.445	0.768
Rapamycin	0.933	1.467
Tcell	1.166	0.652
GMCSF	-0.578	0.409
IFNab	-0.209	0.348
IFNg	1.002	0.35
IFNg_GMCSF1	-0.446	0.606
Rv1432_day32	0.0	0.789
Rv1565c_day32	1.006	-1.671
secA2_input	-1.136	0.611
delta_Rv3594	-0.323	0.211
delta_Rv3717	-0.988	0.0
delta_Rv3811	-1.261	-0.126
delta_Rv0954	0.686	0.981
PonA1	0.384	0.233
EccD1_KO	-0.855	-0.927
EspI_KO	-0.291	0.063
PE35_KO	-1.17	-0.747
PPE68_KO	-1.283	-0.682
glycerol2	-0.82	-0.46
lignocerate	-1.357	-0.342
oleate	0.444	-0.323
phosphatidylcholine	-0.581	-0.287
acetate	-1.699	-0.642
glucAc	-2.023	-0.365
Rv0950ko	1.04	0.582
Rv1096ko	0.603	0.431
Rv3684ko	0.763	0.422
delta_otsA_trehalose	-1.253	-1.37