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 Rv0515/-

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

	Rv3331/sugI	Rv0515/-
Fe_supp_jason_reseq	-1.05	0.237
low_pH_jason_reseq	-0.345	-1.26
NO_jason_reseq	3.048	0.228
B6_jason_reseq	0.027	-0.109
MHCII_jason_reseq	-0.221	0.314
Isoniazid02	0.455	0.141
Rifampicin4	1.79	0.788
Ethambutol3	1.144	0.118
Meropenem3	0.305	0.763
Vancomycin16	1.979	0.257
Rv2680_day32	-0.497	-0.13
H37Rv_KO_MarP	0.262	-0.04
hypoxia_3wks	-0.116	0.211
hypoxia_6wks	-0.885	-0.223
glycerol	0.424	-0.079
cholesterol	0.389	0.076
AJ	0.654	0.598
Bibs02	-0.499	0.633
Bibs02c	0.781	1.128
BL6	0.896	-0.053
BL6a	0.204	0.643
BXD01	0.795	0.086
BXD010	0.645	0.351
BXD011	-0.065	-0.225
BXD03	0.356	0.355
BXD04	0.994	0.502
BXD05	0.388	0.253
BXD06	0.166	-0.04
BXD07	0.483	0.11
BXD08	0.635	0.184
BXD09	0.729	0.037
CAST	1.542	0.677
CCcont	0.209	-0.109
DS01	1.189	0.977
DS02	2.748	0.531
DS04	1.211	0.651
DS0c	1.136	0.503
GP01	0.327	0.358
GP02	-0.536	0.564
GP0c	-0.369	0.023
NOD	0.914	0.61
NZO	1.394	0.669
PWK	1.037	0.827
H37Rv_KO_CtpC	0.851	0.934
H37Rv_KO_CtpD	1.383	0.69
H37Rv_KO_Rv1272	-0.147	0.317
H37Rv_KO_SugABC	0.524	0.466
H37Rv_KO_MbtN	-0.799	0.597
Trans05	0.134	0.393
macrophage_unactivated	-0.669	-0.609
IL1	-0.24	-0.884
Rapamycin	-0.792	-0.562
Tcell	-1.212	-1.18
GMCSF	0.169	-0.333
IFNab	-0.46	-1.004
IFNg	-0.216	-0.19
IFNg_GMCSF1	0.041	-0.575
Rv1432_day32	0.331	0.274
Rv1565c_day32	0.605	-0.234
secA2_input	-0.657	0.013
delta_Rv3594	-0.522	-0.768
delta_Rv3717	-0.75	-0.574
delta_Rv3811	-1.603	-0.672
delta_Rv0954	-0.255	-0.638
PonA1	0.286	-0.517
EccD1_KO	-0.97	0.388
EspI_KO	-0.593	0.248
PE35_KO	0.373	0.335
PPE68_KO	-0.534	0.083
glycerol2	-0.503	0.249
lignocerate	0.094	0.234
oleate	0.452	-0.135
phosphatidylcholine	1.693	0.111
acetate	0.652	0.165
glucAc	0.156	0.338
Rv0950ko	1.263	0.452
Rv1096ko	0.802	0.265
Rv3684ko	-0.052	0.373
delta_otsA_trehalose	-0.122	0.594