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 Rv1223/htrA:

update plot	correlation	link to info on gene
Rv0678/-	(cc=0.4679)	info on Rv0678/-
Rv2833c/ugpB	(cc=0.4499)	info on Rv2833c/ugpB
Rv1261c/-	(cc=0.4449)	info on Rv1261c/-
Rv1021/-	(cc=0.4434)	info on Rv1021/-
Rv1009/rpfB	(cc=0.433)	info on Rv1009/rpfB
Rv1933c/fadE18	(cc=0.4223)	info on Rv1933c/fadE18
Rv3210c/-	(cc=0.4121)	info on Rv3210c/-
Rv2061c/-	(cc=0.4048)	info on Rv2061c/-
Rv3528c/-	(cc=0.3999)	info on Rv3528c/-
Rv1237/sugB	(cc=0.3979)	info on Rv1237/sugB

Correlation of Rv1223/htrA with Rv0678/-

Normalized LFCs for Rv1223/htrA:
(description and provenance of datasets)

	Rv1223/htrA	Rv0678/-
Fe_supp_jason_reseq	0.169	-0.548
low_pH_jason_reseq	-0.316	-1.551
NO_jason_reseq	0.0	-0.982
B6_jason_reseq	-0.326	-2.07
MHCII_jason_reseq	-0.873	-2.401
Isoniazid02	0.099	0.039
Rifampicin4	-0.26	-0.393
Ethambutol3	-0.275	1.615
Meropenem3	-1.09	-1.376
Vancomycin16	0.353	0.358
Rv2680_day32	1.77	0.041
H37Rv_KO_MarP	-0.512	0.643
hypoxia_3wks	-0.08	-1.296
hypoxia_6wks	-0.127	-0.322
glycerol	-0.222	0.911
cholesterol	1.211	0.532
AJ	0.637	-0.706
Bibs02	-0.049	0.297
Bibs02c	0.53	-1.29
BL6	0.094	0.019
BL6a	0.198	-0.321
BXD01	0.927	0.11
BXD010	-0.141	-0.041
BXD011	0.424	0.346
BXD03	0.98	0.792
BXD04	0.959	0.403
BXD05	0.341	0.765
BXD06	0.719	0.162
BXD07	0.809	0.652
BXD08	0.817	-0.53
BXD09	1.089	-0.333
CAST	-0.859	-0.085
CCcont	0.607	0.817
DS01	0.399	-0.958
DS02	0.164	-0.632
DS04	0.194	0.72
DS0c	-0.891	-1.758
GP01	-0.883	0.05
GP02	-0.561	-1.75
GP0c	-0.105	-0.589
NOD	-1.298	-0.132
NZO	-0.338	-0.117
PWK	-1.047	-1.569
H37Rv_KO_CtpC	0.901	0.632
H37Rv_KO_CtpD	0.064	0.143
H37Rv_KO_Rv1272	1.814	1.22
H37Rv_KO_SugABC	-1.163	-1.876
H37Rv_KO_MbtN	0.719	-1.526
Trans05	0.249	0.219
macrophage_unactivated	0.445	0.496
IL1	0.801	0.359
Rapamycin	1.089	-0.196
Tcell	0.521	0.443
GMCSF	0.85	1.294
IFNab	0.707	-1.209
IFNg	0.0	0.847
IFNg_GMCSF1	0.443	-0.28
Rv1432_day32	-2.177	-1.576
Rv1565c_day32	0.349	0.625
secA2_input	-0.637	1.054
delta_Rv3594	-0.471	-0.746
delta_Rv3717	-0.072	-0.953
delta_Rv3811	-0.424	-0.674
delta_Rv0954	-0.124	0.012
PonA1	-0.916	-0.47
EccD1_KO	-0.704	-0.408
EspI_KO	-0.61	-1.315
PE35_KO	0.414	0.23
PPE68_KO	-0.506	-0.141
glycerol2	0.0	1.721
lignocerate	0.452	-0.561
oleate	1.194	2.307
phosphatidylcholine	0.976	1.269
acetate	0.451	0.973
glucAc	-0.251	0.114
Rv0950ko	0.262	0.41
Rv1096ko	0.513	-0.594
Rv3684ko	0.468	-0.622
delta_otsA_trehalose	0.324	0.105