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 Rv2835c/ugpA:

update plot	correlation	link to info on gene
Rv1088/PE9	(cc=0.5128)	info on Rv1088/PE9
Rv2519/PE26	(cc=0.4919)	info on Rv2519/PE26
Rv2548/vapC19	(cc=0.4764)	info on Rv2548/vapC19
Rv1502/-	(cc=0.474)	info on Rv1502/-
Rv2544/lppB	(cc=0.4649)	info on Rv2544/lppB
Rv0867c/rpfA	(cc=0.4493)	info on Rv0867c/rpfA
Rv1678/-	(cc=0.4274)	info on Rv1678/-
Rv1987/-	(cc=0.4264)	info on Rv1987/-
Rv2056c/rpsN2	(cc=0.4261)	info on Rv2056c/rpsN2
Rv0724/sppA	(cc=0.4232)	info on Rv0724/sppA

Correlation of Rv2835c/ugpA with Rv1088/PE9

Normalized LFCs for Rv2835c/ugpA:
(description and provenance of datasets)

	Rv2835c/ugpA	Rv1088/PE9
Fe_supp_jason_reseq	-0.041	1.621
low_pH_jason_reseq	-0.644	-2.414
NO_jason_reseq	0.2	-0.108
B6_jason_reseq	0.337	-0.142
MHCII_jason_reseq	0.0	-1.374
Isoniazid02	0.0	0.534
Rifampicin4	-0.236	1.037
Ethambutol3	0.452	0.505
Meropenem3	-0.052	1.364
Vancomycin16	0.573	0.268
Rv2680_day32	-0.16	-3.328
H37Rv_KO_MarP	-0.972	-0.277
hypoxia_3wks	-0.076	0.299
hypoxia_6wks	-0.24	0.021
glycerol	-0.976	-2.147
cholesterol	0.289	-0.961
AJ	-0.983	-0.827
Bibs02	0.919	0.842
Bibs02c	-1.011	-0.981
BL6	0.481	0.674
BL6a	-0.026	1.459
BXD01	-0.321	1.37
BXD010	0.842	1.021
BXD011	1.01	1.285
BXD03	1.22	1.652
BXD04	0.561	0.061
BXD05	0.79	1.745
BXD06	0.594	1.016
BXD07	0.429	0.866
BXD08	0.334	1.823
BXD09	0.915	1.547
CAST	-0.185	-0.445
CCcont	0.42	0.882
DS01	0.031	-1.567
DS02	1.126	0.21
DS04	1.862	-0.316
DS0c	-0.498	-1.439
GP01	-0.211	-1.37
GP02	0.175	-0.065
GP0c	0.143	0.253
NOD	-0.908	-1.189
NZO	0.376	0.87
PWK	0.099	-1.445
H37Rv_KO_CtpC	1.068	0.971
H37Rv_KO_CtpD	0.851	0.683
H37Rv_KO_Rv1272	-0.257	1.354
H37Rv_KO_SugABC	1.111	0.606
H37Rv_KO_MbtN	-0.397	-0.659
Trans05	1.207	2.476
macrophage_unactivated	0.836	0.707
IL1	0.786	0.406
Rapamycin	-0.512	0.663
Tcell	-0.283	1.896
GMCSF	0.565	0.446
IFNab	0.215	0.106
IFNg	-0.099	0.759
IFNg_GMCSF1	0.364	-0.569
Rv1432_day32	-0.666	0.265
Rv1565c_day32	0.521	0.414
secA2_input	0.21	-1.772
delta_Rv3594	0.379	-0.278
delta_Rv3717	0.451	0.54
delta_Rv3811	0.935	0.776
delta_Rv0954	0.296	-0.631
PonA1	-0.283	-0.248
EccD1_KO	0.056	-0.707
EspI_KO	0.242	0.0
PE35_KO	-0.053	-1.683
PPE68_KO	-0.173	-1.11
glycerol2	-0.369	0.266
lignocerate	0.917	0.911
oleate	-2.137	-0.588
phosphatidylcholine	0.466	0.585
acetate	0.788	0.198
glucAc	0.933	0.484
Rv0950ko	-0.953	-0.992
Rv1096ko	-1.252	-3.016
Rv3684ko	-0.632	-2.738
delta_otsA_trehalose	0.436	0.539