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 Rv2303c/-:

update plot	correlation	link to info on gene
Rv2881c/cdsA	(cc=0.549)	info on Rv2881c/cdsA
Rv3184/-	(cc=0.5372)	info on Rv3184/-
Rv1673c/-	(cc=0.5317)	info on Rv1673c/-
Rv2576c/-	(cc=0.5087)	info on Rv2576c/-
Rv1215c/-	(cc=0.5001)	info on Rv1215c/-
Rv2278/-	(cc=0.4905)	info on Rv2278/-
Rv1369c/-	(cc=0.4873)	info on Rv1369c/-
Rv3533c/PPE62	(cc=0.4837)	info on Rv3533c/PPE62
Rv3884c/eccA2	(cc=0.4774)	info on Rv3884c/eccA2
Rv1756c/-	(cc=0.4652)	info on Rv1756c/-

Correlation of Rv2303c/- with Rv2881c/cdsA

Normalized LFCs for Rv2303c/-:
(description and provenance of datasets)

	Rv2303c/-	Rv2881c/cdsA
Fe_supp_jason_reseq	-0.186	0.0
low_pH_jason_reseq	0.269	0.284
NO_jason_reseq	0.0	-1.42
B6_jason_reseq	0.047	-0.103
MHCII_jason_reseq	0.088	-0.663
Isoniazid02	0.111	0.0
Rifampicin4	-0.195	0.0
Ethambutol3	0.507	0.0
Meropenem3	0.864	0.0
Vancomycin16	0.0	0.366
Rv2680_day32	0.163	-0.131
H37Rv_KO_MarP	0.134	-0.291
hypoxia_3wks	0.439	0.0
hypoxia_6wks	0.23	0.0
glycerol	0.452	-0.202
cholesterol	0.196	-0.145
AJ	0.355	-0.232
Bibs02	-0.176	-0.183
Bibs02c	-0.056	-0.209
BL6	0.37	-0.125
BL6a	0.076	0.901
BXD01	0.184	0.328
BXD010	0.136	1.098
BXD011	0.401	2.555
BXD03	-0.036	0.0
BXD04	0.896	-0.124
BXD05	0.786	1.667
BXD06	0.447	0.687
BXD07	0.476	0.126
BXD08	0.101	0.431
BXD09	0.215	0.802
CAST	0.245	0.581
CCcont	0.019	0.261
DS01	0.121	0.216
DS02	-0.306	0.704
DS04	0.394	-0.194
DS0c	0.014	0.0
GP01	0.242	0.564
GP02	0.977	0.901
GP0c	0.067	1.788
NOD	0.74	1.731
NZO	0.977	-0.199
PWK	0.429	-0.196
H37Rv_KO_CtpC	0.768	0.637
H37Rv_KO_CtpD	0.523	1.951
H37Rv_KO_Rv1272	0.563	1.022
H37Rv_KO_SugABC	0.293	-0.099
H37Rv_KO_MbtN	0.825	-0.103
Trans05	0.981	2.824
macrophage_unactivated	-0.638	-0.398
IL1	-0.839	-0.78
Rapamycin	0.114	-0.387
Tcell	0.391	0.375
GMCSF	-0.401	-0.333
IFNab	-0.587	-0.795
IFNg	-0.596	-0.703
IFNg_GMCSF1	-0.544	-0.826
Rv1432_day32	0.27	0.0
Rv1565c_day32	-0.178	0.0
secA2_input	-0.088	-0.348
delta_Rv3594	0.543	-0.997
delta_Rv3717	-0.115	0.081
delta_Rv3811	-0.497	-1.3
delta_Rv0954	-0.512	-0.274
PonA1	0.495	-0.077
EccD1_KO	1.243	1.924
EspI_KO	0.924	0.633
PE35_KO	0.613	3.564
PPE68_KO	0.56	2.121
glycerol2	-0.167	0.104
lignocerate	-0.46	-0.96
oleate	-0.139	-0.483
phosphatidylcholine	-0.38	-0.478
acetate	-0.08	-1.31
glucAc	-0.328	-0.456
Rv0950ko	0.066	0.211
Rv1096ko	-0.718	-0.706
Rv3684ko	0.026	-0.766
delta_otsA_trehalose	0.098	-0.232