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 Rv3176c/mesT:

update plot	correlation	link to info on gene
Rv0235c/-	(cc=0.5412)	info on Rv0235c/-
Rv1526c/-	(cc=0.5322)	info on Rv1526c/-
Rv2730/-	(cc=0.5017)	info on Rv2730/-
Rv1051c/-	(cc=0.4928)	info on Rv1051c/-
Rv1548c/PPE21	(cc=0.4823)	info on Rv1548c/PPE21
Rv0742/PE_PGRS8	(cc=0.4789)	info on Rv0742/PE_PGRS8
Rv1753c/PPE24	(cc=0.4691)	info on Rv1753c/PPE24
Rv3836/-	(cc=0.4678)	info on Rv3836/-
Rv0354c/PPE7	(cc=0.4668)	info on Rv0354c/PPE7
Rv3050c/-	(cc=0.4603)	info on Rv3050c/-

Correlation of Rv3176c/mesT with Rv0235c/-

Normalized LFCs for Rv3176c/mesT:
(description and provenance of datasets)

	Rv3176c/mesT	Rv0235c/-
Fe_supp_jason_reseq	-0.336	-0.783
low_pH_jason_reseq	0.391	-0.204
NO_jason_reseq	0.583	0.0
B6_jason_reseq	-0.721	-0.687
MHCII_jason_reseq	-0.592	-0.63
Isoniazid02	-0.589	0.164
Rifampicin4	-0.39	0.0
Ethambutol3	-0.204	0.035
Meropenem3	-0.744	0.035
Vancomycin16	-0.6	0.0
Rv2680_day32	0.521	0.105
H37Rv_KO_MarP	0.608	0.155
hypoxia_3wks	0.399	0.191
hypoxia_6wks	-0.672	-0.443
glycerol	0.544	0.075
cholesterol	0.662	-0.055
AJ	0.474	0.086
Bibs02	0.605	-1.13
Bibs02c	-1.234	0.039
BL6	1.063	1.27
BL6a	0.684	1.072
BXD01	0.663	1.126
BXD010	0.424	0.904
BXD011	1.035	0.508
BXD03	0.6	1.42
BXD04	0.409	1.098
BXD05	0.405	0.447
BXD06	1.316	0.863
BXD07	1.398	1.406
BXD08	1.056	0.874
BXD09	0.733	0.578
CAST	0.796	0.205
CCcont	1.05	1.15
DS01	1.016	0.044
DS02	1.024	-0.082
DS04	0.363	0.394
DS0c	-0.284	-0.041
GP01	1.134	1.319
GP02	1.321	2.076
GP0c	1.501	0.788
NOD	-0.63	0.866
NZO	0.6	0.212
PWK	-0.124	0.571
H37Rv_KO_CtpC	1.001	1.221
H37Rv_KO_CtpD	-0.389	-0.661
H37Rv_KO_Rv1272	1.826	0.451
H37Rv_KO_SugABC	1.559	1.891
H37Rv_KO_MbtN	-0.209	0.462
Trans05	1.509	1.231
macrophage_unactivated	0.426	0.805
IL1	0.442	0.0
Rapamycin	0.669	-0.592
Tcell	0.485	0.209
GMCSF	1.199	0.708
IFNab	0.184	-0.756
IFNg	0.51	-0.775
IFNg_GMCSF1	0.468	-0.666
Rv1432_day32	1.229	1.25
Rv1565c_day32	-1.21	0.0
secA2_input	0.593	-0.031
delta_Rv3594	0.393	0.909
delta_Rv3717	0.305	0.893
delta_Rv3811	1.054	0.721
delta_Rv0954	1.337	0.699
PonA1	0.592	0.278
EccD1_KO	-0.947	0.0
EspI_KO	-0.918	-0.419
PE35_KO	0.63	-0.28
PPE68_KO	0.95	0.099
glycerol2	-0.025	1.1
lignocerate	0.6	0.956
oleate	-0.299	0.719
phosphatidylcholine	0.235	0.634
acetate	1.26	0.459
glucAc	1.006	1.092
Rv0950ko	-0.416	-0.292
Rv1096ko	-0.078	-0.048
Rv3684ko	-0.357	-0.373
delta_otsA_trehalose	-0.608	-1.372