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 Rv3525c/-:

update plot	correlation	link to info on gene
Rv2061c/-	(cc=0.5587)	info on Rv2061c/-
Rv3572/-	(cc=0.5147)	info on Rv3572/-
Rv1365c/rsfA	(cc=0.4917)	info on Rv1365c/rsfA
Rv1615/-	(cc=0.4581)	info on Rv1615/-
Rv0921/-	(cc=0.451)	info on Rv0921/-
Rv1148c/-	(cc=0.4338)	info on Rv1148c/-
Rv3233c/-	(cc=0.4288)	info on Rv3233c/-
Rv1268c/-	(cc=0.4287)	info on Rv1268c/-
Rv2854/-	(cc=0.4258)	info on Rv2854/-
Rv2313c/-	(cc=0.4252)	info on Rv2313c/-

Correlation of Rv3525c/- with Rv3233c/-

Normalized LFCs for Rv3525c/-:
(description and provenance of datasets)

	Rv3525c/-	Rv3233c/-
Fe_supp_jason_reseq	-0.846	-0.284
low_pH_jason_reseq	-0.386	-0.992
NO_jason_reseq	-0.69	0.179
B6_jason_reseq	-0.584	0.054
MHCII_jason_reseq	-0.066	0.65
Isoniazid02	-2.03	-1.117
Rifampicin4	0.56	0.236
Ethambutol3	-1.992	-1.294
Meropenem3	-2.554	-1.702
Vancomycin16	-0.915	-0.947
Rv2680_day32	1.002	0.518
H37Rv_KO_MarP	1.054	0.382
hypoxia_3wks	0.566	-0.247
hypoxia_6wks	0.081	-0.578
glycerol	-0.012	-0.995
cholesterol	-0.776	0.292
AJ	0.066	-0.034
Bibs02	0.584	-0.048
Bibs02c	-0.309	0.382
BL6	-0.288	0.252
BL6a	0.247	-0.172
BXD01	-0.788	-0.537
BXD010	-0.314	-0.443
BXD011	-0.197	-0.305
BXD03	0.133	-0.016
BXD04	-0.605	-0.282
BXD05	0.323	0.252
BXD06	-0.356	-0.5
BXD07	-0.169	-0.267
BXD08	-0.752	-0.323
BXD09	-0.208	-0.131
CAST	0.287	0.744
CCcont	-0.982	-0.622
DS01	0.08	0.681
DS02	-1.144	0.354
DS04	0.561	0.06
DS0c	-1.021	0.327
GP01	-1.589	0.382
GP02	-1.539	-0.673
GP0c	-1.783	-0.455
NOD	-0.093	1.451
NZO	-0.669	0.887
PWK	0.213	-0.064
H37Rv_KO_CtpC	-0.284	-0.005
H37Rv_KO_CtpD	-1.105	0.477
H37Rv_KO_Rv1272	-0.589	-0.004
H37Rv_KO_SugABC	-1.767	0.588
H37Rv_KO_MbtN	0.654	0.003
Trans05	0.029	-0.164
macrophage_unactivated	0.603	-0.069
IL1	-0.555	-0.632
Rapamycin	0.344	-0.371
Tcell	0.336	-0.414
GMCSF	0.504	-0.029
IFNab	0.732	0.115
IFNg	0.601	-0.307
IFNg_GMCSF1	0.091	0.962
Rv1432_day32	-0.103	0.098
Rv1565c_day32	-0.074	0.415
secA2_input	-0.809	-0.704
delta_Rv3594	0.127	-0.072
delta_Rv3717	-0.355	-0.185
delta_Rv3811	0.241	0.39
delta_Rv0954	-0.298	-0.146
PonA1	-0.089	0.898
EccD1_KO	0.309	0.0
EspI_KO	-1.569	0.031
PE35_KO	-0.236	-0.146
PPE68_KO	-0.173	-0.106
glycerol2	-0.804	-0.377
lignocerate	-1.136	-0.476
oleate	-0.405	0.043
phosphatidylcholine	-0.606	-0.52
acetate	-1.298	-0.986
glucAc	-1.615	-0.808
Rv0950ko	0.09	0.482
Rv1096ko	0.262	0.591
Rv3684ko	-0.167	0.553
delta_otsA_trehalose	-1.098	-0.19