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 Rv3697c/vapC48

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

	Rv3331/sugI	Rv3697c/vapC48
Fe_supp_jason_reseq	-1.05	1.004
low_pH_jason_reseq	-0.345	0.248
NO_jason_reseq	3.048	0.257
B6_jason_reseq	0.027	0.432
MHCII_jason_reseq	-0.221	0.625
Isoniazid02	0.455	0.127
Rifampicin4	1.79	0.986
Ethambutol3	1.144	0.259
Meropenem3	0.305	0.623
Vancomycin16	1.979	0.849
Rv2680_day32	-0.497	-0.608
H37Rv_KO_MarP	0.262	0.141
hypoxia_3wks	-0.116	-0.187
hypoxia_6wks	-0.885	0.599
glycerol	0.424	-1.059
cholesterol	0.389	-0.18
AJ	0.654	1.141
Bibs02	-0.499	0.148
Bibs02c	0.781	1.023
BL6	0.896	0.43
BL6a	0.204	0.946
BXD01	0.795	1.006
BXD010	0.645	0.63
BXD011	-0.065	0.497
BXD03	0.356	0.265
BXD04	0.994	0.173
BXD05	0.388	0.037
BXD06	0.166	0.352
BXD07	0.483	0.319
BXD08	0.635	0.723
BXD09	0.729	0.615
CAST	1.542	0.929
CCcont	0.209	0.578
DS01	1.189	0.7
DS02	2.748	1.311
DS04	1.211	0.926
DS0c	1.136	1.073
GP01	0.327	0.32
GP02	-0.536	1.123
GP0c	-0.369	0.655
NOD	0.914	1.15
NZO	1.394	0.351
PWK	1.037	1.223
H37Rv_KO_CtpC	0.851	1.453
H37Rv_KO_CtpD	1.383	0.915
H37Rv_KO_Rv1272	-0.147	-0.06
H37Rv_KO_SugABC	0.524	1.48
H37Rv_KO_MbtN	-0.799	0.337
Trans05	0.134	1.053
macrophage_unactivated	-0.669	-0.675
IL1	-0.24	-1.053
Rapamycin	-0.792	-1.789
Tcell	-1.212	-0.534
GMCSF	0.169	-1.595
IFNab	-0.46	-0.98
IFNg	-0.216	-0.676
IFNg_GMCSF1	0.041	-1.254
Rv1432_day32	0.331	-1.395
Rv1565c_day32	0.605	0.684
secA2_input	-0.657	-0.368
delta_Rv3594	-0.522	0.021
delta_Rv3717	-0.75	-0.279
delta_Rv3811	-1.603	-0.042
delta_Rv0954	-0.255	-0.239
PonA1	0.286	-0.059
EccD1_KO	-0.97	-0.576
EspI_KO	-0.593	0.02
PE35_KO	0.373	-0.257
PPE68_KO	-0.534	-0.307
glycerol2	-0.503	0.743
lignocerate	0.094	1.221
oleate	0.452	0.95
phosphatidylcholine	1.693	1.308
acetate	0.652	0.329
glucAc	0.156	0.432
Rv0950ko	1.263	1.077
Rv1096ko	0.802	0.033
Rv3684ko	-0.052	0.701
delta_otsA_trehalose	-0.122	-0.143