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 Rv0516c/-:

update plot	correlation	link to info on gene
Rv0020c/fhaA	(cc=0.4947)	info on Rv0020c/fhaA
Rv3365c/-	(cc=0.4737)	info on Rv3365c/-
Rv1640c/lysX	(cc=0.4645)	info on Rv1640c/lysX
Rv0731c/-	(cc=0.4611)	info on Rv0731c/-
Rv0906/-	(cc=0.4533)	info on Rv0906/-
Rv1749c/-	(cc=0.4425)	info on Rv1749c/-
Rv1190/-	(cc=0.437)	info on Rv1190/-
Rv3681c/whiB4	(cc=0.4361)	info on Rv3681c/whiB4
Rv0488/-	(cc=0.4265)	info on Rv0488/-
Rv1435c/-	(cc=0.4212)	info on Rv1435c/-

Correlation of Rv0516c/- with Rv0020c/fhaA

Normalized LFCs for Rv0516c/-:
(description and provenance of datasets)

	Rv0516c/-	Rv0020c/fhaA
Fe_supp_jason_reseq	0.791	0.619
low_pH_jason_reseq	-0.519	1.077
NO_jason_reseq	-0.543	0.651
B6_jason_reseq	0.362	1.507
MHCII_jason_reseq	-0.18	1.489
Isoniazid02	0.115	0.962
Rifampicin4	-0.98	-1.34
Ethambutol3	-1.064	-1.395
Meropenem3	-0.409	-0.371
Vancomycin16	-1.329	-1.677
Rv2680_day32	0.378	0.381
H37Rv_KO_MarP	-0.741	-2.059
hypoxia_3wks	0.666	1.471
hypoxia_6wks	0.672	2.859
glycerol	-1.065	-0.31
cholesterol	-0.012	0.067
AJ	0.765	0.309
Bibs02	0.252	1.409
Bibs02c	0.095	0.82
BL6	0.08	-0.192
BL6a	0.184	0.641
BXD01	-0.323	0.227
BXD010	0.662	0.866
BXD011	-0.146	-0.196
BXD03	-0.098	0.735
BXD04	-0.02	0.057
BXD05	0.041	0.731
BXD06	-0.581	-0.133
BXD07	-0.032	0.126
BXD08	-0.175	0.284
BXD09	-0.21	0.3
CAST	-0.429	0.21
CCcont	-0.095	0.319
DS01	1.521	2.216
DS02	1.508	1.955
DS04	1.05	1.744
DS0c	1.101	1.411
GP01	0.377	0.617
GP02	1.341	1.122
GP0c	0.277	0.173
NOD	-0.07	-0.605
NZO	1.195	1.948
PWK	0.153	0.0
H37Rv_KO_CtpC	-0.124	-0.54
H37Rv_KO_CtpD	0.019	0.0
H37Rv_KO_Rv1272	0.811	0.844
H37Rv_KO_SugABC	0.982	2.27
H37Rv_KO_MbtN	0.371	-0.413
Trans05	0.874	1.066
macrophage_unactivated	0.357	-0.379
IL1	-0.472	-0.747
Rapamycin	-0.325	0.341
Tcell	-0.596	0.362
GMCSF	-0.515	-0.317
IFNab	0.372	0.795
IFNg	-0.588	0.297
IFNg_GMCSF1	-0.104	-0.578
Rv1432_day32	0.546	0.583
Rv1565c_day32	-2.688	0.0
secA2_input	0.593	-1.263
delta_Rv3594	0.756	0.759
delta_Rv3717	0.646	0.785
delta_Rv3811	0.796	0.555
delta_Rv0954	0.141	-2.079
PonA1	-0.096	-2.127
EccD1_KO	-0.339	-1.552
EspI_KO	0.066	-1.765
PE35_KO	-0.607	-1.243
PPE68_KO	-1.008	-1.661
glycerol2	1.267	-0.611
lignocerate	1.091	-0.531
oleate	-1.319	-1.167
phosphatidylcholine	0.745	-0.611
acetate	1.413	-0.106
glucAc	0.732	-0.209
Rv0950ko	-0.356	-0.621
Rv1096ko	0.679	-0.302
Rv3684ko	0.498	1.477
delta_otsA_trehalose	-0.949	0.711