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 Rv1021/-

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

	Rv1223/htrA	Rv1021/-
Fe_supp_jason_reseq	0.169	1.656
low_pH_jason_reseq	-0.316	-0.816
NO_jason_reseq	0.0	-0.116
B6_jason_reseq	-0.326	0.047
MHCII_jason_reseq	-0.873	-0.194
Isoniazid02	0.099	-0.105
Rifampicin4	-0.26	-0.726
Ethambutol3	-0.275	-0.929
Meropenem3	-1.09	-0.086
Vancomycin16	0.353	0.573
Rv2680_day32	1.77	0.139
H37Rv_KO_MarP	-0.512	-0.43
hypoxia_3wks	-0.08	0.71
hypoxia_6wks	-0.127	1.054
glycerol	-0.222	-0.462
cholesterol	1.211	-0.427
AJ	0.637	-0.847
Bibs02	-0.049	0.518
Bibs02c	0.53	0.205
BL6	0.094	2.07
BL6a	0.198	1.583
BXD01	0.927	1.689
BXD010	-0.141	1.961
BXD011	0.424	1.547
BXD03	0.98	2.232
BXD04	0.959	1.528
BXD05	0.341	1.842
BXD06	0.719	1.796
BXD07	0.809	1.958
BXD08	0.817	1.375
BXD09	1.089	1.653
CAST	-0.859	0.592
CCcont	0.607	1.9
DS01	0.399	0.34
DS02	0.164	-0.452
DS04	0.194	2.042
DS0c	-0.891	1.188
GP01	-0.883	1.3
GP02	-0.561	1.146
GP0c	-0.105	0.482
NOD	-1.298	-0.662
NZO	-0.338	0.165
PWK	-1.047	0.223
H37Rv_KO_CtpC	0.901	0.954
H37Rv_KO_CtpD	0.064	1.002
H37Rv_KO_Rv1272	1.814	1.674
H37Rv_KO_SugABC	-1.163	0.896
H37Rv_KO_MbtN	0.719	0.382
Trans05	0.249	1.876
macrophage_unactivated	0.445	0.562
IL1	0.801	2.37
Rapamycin	1.089	2.391
Tcell	0.521	-1.434
GMCSF	0.85	1.917
IFNab	0.707	1.527
IFNg	0.0	1.523
IFNg_GMCSF1	0.443	1.986
Rv1432_day32	-2.177	-1.639
Rv1565c_day32	0.349	1.663
secA2_input	-0.637	-0.534
delta_Rv3594	-0.471	-0.601
delta_Rv3717	-0.072	-0.927
delta_Rv3811	-0.424	-0.5
delta_Rv0954	-0.124	-1.35
PonA1	-0.916	0.249
EccD1_KO	-0.704	-0.789
EspI_KO	-0.61	-0.128
PE35_KO	0.414	0.446
PPE68_KO	-0.506	-0.144
glycerol2	0.0	0.209
lignocerate	0.452	0.689
oleate	1.194	0.388
phosphatidylcholine	0.976	0.448
acetate	0.451	0.745
glucAc	-0.251	0.358
Rv0950ko	0.262	0.938
Rv1096ko	0.513	0.398
Rv3684ko	0.468	0.134
delta_otsA_trehalose	0.324	-1.021