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 Rv3331/sugI:

update plot	correlation	link to info on gene
Rv0336/-	(cc=0.5126)	info on Rv0336/-
Rv0515/-	(cc=0.4943)	info on Rv0515/-
Rv2867c/-	(cc=0.4643)	info on Rv2867c/-
Rv2880c/-	(cc=0.4566)	info on Rv2880c/-
Rv3697c/vapC48	(cc=0.4562)	info on Rv3697c/vapC48
Rv1439c/-	(cc=0.451)	info on Rv1439c/-
Rv2665/-	(cc=0.4362)	info on Rv2665/-
Rv2118c/-	(cc=0.425)	info on Rv2118c/-
Rv3474/-	(cc=0.4241)	info on Rv3474/-
Rv0775/-	(cc=0.4231)	info on Rv0775/-

Correlation of Rv3331/sugI with Rv2665/-

Normalized LFCs for Rv3331/sugI:
(description and provenance of datasets)

	Rv3331/sugI	Rv2665/-
Fe_supp_jason_reseq	-1.05	-0.783
low_pH_jason_reseq	-0.345	-0.597
NO_jason_reseq	3.048	-0.473
B6_jason_reseq	0.027	-1.301
MHCII_jason_reseq	-0.221	-0.097
Isoniazid02	0.455	-0.368
Rifampicin4	1.79	0.487
Ethambutol3	1.144	0.272
Meropenem3	0.305	1.252
Vancomycin16	1.979	0.525
Rv2680_day32	-0.497	1.145
H37Rv_KO_MarP	0.262	0.799
hypoxia_3wks	-0.116	0.415
hypoxia_6wks	-0.885	0.238
glycerol	0.424	-0.039
cholesterol	0.389	0.147
AJ	0.654	1.331
Bibs02	-0.499	0.727
Bibs02c	0.781	0.94
BL6	0.896	1.076
BL6a	0.204	0.914
BXD01	0.795	0.695
BXD010	0.645	0.818
BXD011	-0.065	0.695
BXD03	0.356	1.396
BXD04	0.994	0.675
BXD05	0.388	1.803
BXD06	0.166	0.992
BXD07	0.483	0.913
BXD08	0.635	1.145
BXD09	0.729	1.296
CAST	1.542	0.692
CCcont	0.209	0.643
DS01	1.189	0.38
DS02	2.748	0.589
DS04	1.211	1.047
DS0c	1.136	0.905
GP01	0.327	0.468
GP02	-0.536	-0.328
GP0c	-0.369	0.293
NOD	0.914	0.343
NZO	1.394	1.783
PWK	1.037	0.755
H37Rv_KO_CtpC	0.851	1.472
H37Rv_KO_CtpD	1.383	2.181
H37Rv_KO_Rv1272	-0.147	-0.174
H37Rv_KO_SugABC	0.524	0.494
H37Rv_KO_MbtN	-0.799	-0.01
Trans05	0.134	0.038
macrophage_unactivated	-0.669	0.249
IL1	-0.24	-0.721
Rapamycin	-0.792	-1.157
Tcell	-1.212	-0.978
GMCSF	0.169	-0.317
IFNab	-0.46	-0.453
IFNg	-0.216	-0.203
IFNg_GMCSF1	0.041	-1.442
Rv1432_day32	0.331	-0.139
Rv1565c_day32	0.605	0.453
secA2_input	-0.657	0.268
delta_Rv3594	-0.522	-0.249
delta_Rv3717	-0.75	-0.274
delta_Rv3811	-1.603	-0.98
delta_Rv0954	-0.255	-0.142
PonA1	0.286	0.817
EccD1_KO	-0.97	-0.036
EspI_KO	-0.593	-0.665
PE35_KO	0.373	-0.755
PPE68_KO	-0.534	0.202
glycerol2	-0.503	-0.353
lignocerate	0.094	-0.069
oleate	0.452	0.187
phosphatidylcholine	1.693	-0.161
acetate	0.652	0.076
glucAc	0.156	-0.379
Rv0950ko	1.263	0.199
Rv1096ko	0.802	0.329
Rv3684ko	-0.052	-0.111
delta_otsA_trehalose	-0.122	-1.481