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 Rv1482c/-:

update plot	correlation	link to info on gene
Rv1215c/-	(cc=0.6263)	info on Rv1215c/-
Rv1616/-	(cc=0.5739)	info on Rv1616/-
Rv0149/-	(cc=0.5435)	info on Rv0149/-
Rv1164/narI	(cc=0.5358)	info on Rv1164/narI
Rv1816/-	(cc=0.5273)	info on Rv1816/-
Rv2305/-	(cc=0.5035)	info on Rv2305/-
Rv1831/-	(cc=0.4994)	info on Rv1831/-
Rv3398c/idsA1	(cc=0.4962)	info on Rv3398c/idsA1
Rv2389c/rpfD	(cc=0.4939)	info on Rv2389c/rpfD
Rv2451/-	(cc=0.4923)	info on Rv2451/-

Correlation of Rv1482c/- with Rv2451/-

Normalized LFCs for Rv1482c/-:
(description and provenance of datasets)

	Rv1482c/-	Rv2451/-
Fe_supp_jason_reseq	0.286	1.092
low_pH_jason_reseq	-0.639	0.647
NO_jason_reseq	0.417	2.707
B6_jason_reseq	-0.856	-0.615
MHCII_jason_reseq	-1.002	-0.031
Isoniazid02	-0.009	0.851
Rifampicin4	0.173	0.103
Ethambutol3	1.923	1.853
Meropenem3	1.896	5.025
Vancomycin16	0.305	0.419
Rv2680_day32	0.067	-0.786
H37Rv_KO_MarP	0.024	-1.762
hypoxia_3wks	0.231	0.61
hypoxia_6wks	-0.013	1.031
glycerol	-0.257	0.257
cholesterol	-0.321	0.435
AJ	0.039	-0.788
Bibs02	-0.729	-2.208
Bibs02c	-0.061	-0.258
BL6	0.836	0.977
BL6a	0.509	0.707
BXD01	0.713	2.221
BXD010	0.887	1.42
BXD011	0.125	1.471
BXD03	0.825	0.885
BXD04	0.434	0.744
BXD05	0.979	1.653
BXD06	0.276	1.453
BXD07	0.398	1.429
BXD08	0.348	2.196
BXD09	0.482	1.389
CAST	-0.264	-1.113
CCcont	0.1	1.705
DS01	-0.732	-0.342
DS02	-0.452	-1.413
DS04	0.427	0.145
DS0c	-0.222	-2.904
GP01	-0.306	0.752
GP02	0.225	-0.705
GP0c	0.286	0.273
NOD	-0.187	0.042
NZO	0.477	0.793
PWK	1.599	-0.117
H37Rv_KO_CtpC	0.9	2.136
H37Rv_KO_CtpD	0.273	-0.651
H37Rv_KO_Rv1272	0.552	2.383
H37Rv_KO_SugABC	0.339	0.986
H37Rv_KO_MbtN	0.431	0.642
Trans05	1.091	1.886
macrophage_unactivated	-0.36	0.0
IL1	0.344	0.94
Rapamycin	-0.144	0.221
Tcell	0.551	0.564
GMCSF	0.605	0.341
IFNab	0.121	-1.085
IFNg	0.224	0.096
IFNg_GMCSF1	0.842	0.226
Rv1432_day32	1.348	0.016
Rv1565c_day32	0.619	0.445
secA2_input	-0.791	-0.992
delta_Rv3594	-0.552	0.098
delta_Rv3717	-0.644	-0.365
delta_Rv3811	-0.761	0.385
delta_Rv0954	-0.652	0.056
PonA1	0.016	-0.583
EccD1_KO	1.181	-0.372
EspI_KO	0.65	-0.04
PE35_KO	0.875	0.414
PPE68_KO	0.873	0.688
glycerol2	-0.328	1.014
lignocerate	-0.412	1.147
oleate	0.388	1.813
phosphatidylcholine	-0.146	0.667
acetate	-0.818	0.141
glucAc	-0.968	0.501
Rv0950ko	0.323	0.039
Rv1096ko	0.036	-0.802
Rv3684ko	0.35	0.216
delta_otsA_trehalose	-1.002	-0.283