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 Rv2851c/-:

update plot	correlation	link to info on gene
Rv2240c/-	(cc=0.5973)	info on Rv2240c/-
Rv3575c/-	(cc=0.5889)	info on Rv3575c/-
Rv0442c/PPE10	(cc=0.5562)	info on Rv0442c/PPE10
Rv2237/-	(cc=0.5264)	info on Rv2237/-
Rv3194c/-	(cc=0.5052)	info on Rv3194c/-
Rv1237/sugB	(cc=0.5007)	info on Rv1237/sugB
Rv3213c/-	(cc=0.4912)	info on Rv3213c/-
Rv0432/sodC	(cc=0.4862)	info on Rv0432/sodC
Rv1987/-	(cc=0.482)	info on Rv1987/-
Rv3534c/hsaF	(cc=0.4775)	info on Rv3534c/hsaF

Correlation of Rv2851c/- with Rv0442c/PPE10

Normalized LFCs for Rv2851c/-:
(description and provenance of datasets)

	Rv2851c/-	Rv0442c/PPE10
Fe_supp_jason_reseq	-0.021	-0.26
low_pH_jason_reseq	-0.852	-0.221
NO_jason_reseq	2.539	0.228
B6_jason_reseq	0.843	-0.059
MHCII_jason_reseq	1.51	-0.082
Isoniazid02	0.781	0.109
Rifampicin4	-0.319	-0.089
Ethambutol3	0.14	0.0
Meropenem3	0.478	0.127
Vancomycin16	-0.653	-0.029
Rv2680_day32	1.779	0.028
H37Rv_KO_MarP	0.562	0.285
hypoxia_3wks	0.809	-0.654
hypoxia_6wks	0.472	-0.038
glycerol	0.884	-0.518
cholesterol	-1.323	-0.426
AJ	-0.484	0.121
Bibs02	0.0	-0.469
Bibs02c	-0.217	-0.082
BL6	0.463	-0.557
BL6a	0.08	-0.298
BXD01	0.373	-0.367
BXD010	0.052	-0.524
BXD011	0.149	-0.383
BXD03	-0.99	-0.879
BXD04	0.744	-0.667
BXD05	0.514	-0.413
BXD06	-0.091	-0.318
BXD07	-0.131	-0.313
BXD08	0.589	0.158
BXD09	1.403	-0.343
CAST	-1.333	-0.21
CCcont	0.612	-0.393
DS01	-0.517	-0.395
DS02	1.549	0.395
DS04	-0.632	-0.028
DS0c	0.635	-0.413
GP01	2.288	0.024
GP02	0.201	1.034
GP0c	1.225	-0.278
NOD	-0.835	0.286
NZO	0.533	-0.289
PWK	-0.776	-0.21
H37Rv_KO_CtpC	0.248	-0.499
H37Rv_KO_CtpD	0.484	-0.397
H37Rv_KO_Rv1272	0.609	0.093
H37Rv_KO_SugABC	2.202	0.723
H37Rv_KO_MbtN	1.314	-0.35
Trans05	1.236	-0.849
macrophage_unactivated	0.956	-0.085
IL1	1.777	0.053
Rapamycin	2.55	0.135
Tcell	1.033	-0.209
GMCSF	1.067	0.383
IFNab	0.051	-0.281
IFNg	3.814	0.321
IFNg_GMCSF1	4.286	0.776
Rv1432_day32	1.601	0.31
Rv1565c_day32	-0.31	-0.03
secA2_input	-0.56	-0.462
delta_Rv3594	0.716	-0.04
delta_Rv3717	0.405	-0.054
delta_Rv3811	0.882	-0.69
delta_Rv0954	0.031	-0.554
PonA1	-1.27	-0.576
EccD1_KO	0.789	-0.312
EspI_KO	0.819	0.228
PE35_KO	0.289	-0.277
PPE68_KO	0.451	-0.179
glycerol2	3.544	0.345
lignocerate	3.187	0.928
oleate	-1.418	-0.421
phosphatidylcholine	3.27	0.536
acetate	2.809	0.618
glucAc	2.649	0.624
Rv0950ko	0.585	0.389
Rv1096ko	0.558	0.296
Rv3684ko	1.041	0.622
delta_otsA_trehalose	2.311	1.603