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 Rv2833c/ugpB

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

	Rv1223/htrA	Rv2833c/ugpB
Fe_supp_jason_reseq	0.169	-1.047
low_pH_jason_reseq	-0.316	-0.855
NO_jason_reseq	0.0	-0.496
B6_jason_reseq	-0.326	-2.495
MHCII_jason_reseq	-0.873	-1.705
Isoniazid02	0.099	0.323
Rifampicin4	-0.26	1.283
Ethambutol3	-0.275	0.505
Meropenem3	-1.09	0.497
Vancomycin16	0.353	0.939
Rv2680_day32	1.77	1.035
H37Rv_KO_MarP	-0.512	-0.188
hypoxia_3wks	-0.08	0.0
hypoxia_6wks	-0.127	-0.234
glycerol	-0.222	-0.693
cholesterol	1.211	0.552
AJ	0.637	-0.541
Bibs02	-0.049	-0.736
Bibs02c	0.53	-1.429
BL6	0.094	1.972
BL6a	0.198	1.025
BXD01	0.927	0.8
BXD010	-0.141	1.237
BXD011	0.424	0.812
BXD03	0.98	1.088
BXD04	0.959	0.67
BXD05	0.341	0.391
BXD06	0.719	0.91
BXD07	0.809	1.167
BXD08	0.817	1.509
BXD09	1.089	1.334
CAST	-0.859	2.478
CCcont	0.607	1.651
DS01	0.399	-0.551
DS02	0.164	0.699
DS04	0.194	-0.905
DS0c	-0.891	-0.506
GP01	-0.883	-0.086
GP02	-0.561	-0.568
GP0c	-0.105	-0.237
NOD	-1.298	0.0
NZO	-0.338	0.309
PWK	-1.047	-0.915
H37Rv_KO_CtpC	0.901	1.177
H37Rv_KO_CtpD	0.064	-1.086
H37Rv_KO_Rv1272	1.814	1.385
H37Rv_KO_SugABC	-1.163	-0.949
H37Rv_KO_MbtN	0.719	-0.625
Trans05	0.249	1.851
macrophage_unactivated	0.445	0.65
IL1	0.801	0.392
Rapamycin	1.089	0.921
Tcell	0.521	0.903
GMCSF	0.85	0.731
IFNab	0.707	0.163
IFNg	0.0	0.216
IFNg_GMCSF1	0.443	0.17
Rv1432_day32	-2.177	-0.961
Rv1565c_day32	0.349	-0.24
secA2_input	-0.637	0.095
delta_Rv3594	-0.471	-0.402
delta_Rv3717	-0.072	-0.802
delta_Rv3811	-0.424	-0.651
delta_Rv0954	-0.124	-0.45
PonA1	-0.916	-0.799
EccD1_KO	-0.704	-1.47
EspI_KO	-0.61	0.091
PE35_KO	0.414	0.443
PPE68_KO	-0.506	0.202
glycerol2	0.0	0.873
lignocerate	0.452	1.376
oleate	1.194	0.489
phosphatidylcholine	0.976	1.108
acetate	0.451	1.079
glucAc	-0.251	1.205
Rv0950ko	0.262	0.582
Rv1096ko	0.513	0.995
Rv3684ko	0.468	1.588
delta_otsA_trehalose	0.324	-1.327