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 Rv1615/-

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

	Rv3525c/-	Rv1615/-
Fe_supp_jason_reseq	-0.846	-3.429
low_pH_jason_reseq	-0.386	-1.571
NO_jason_reseq	-0.69	-0.732
B6_jason_reseq	-0.584	-0.432
MHCII_jason_reseq	-0.066	-0.675
Isoniazid02	-2.03	-1.809
Rifampicin4	0.56	1.224
Ethambutol3	-1.992	-0.737
Meropenem3	-2.554	-0.183
Vancomycin16	-0.915	-0.146
Rv2680_day32	1.002	-0.463
H37Rv_KO_MarP	1.054	-1.29
hypoxia_3wks	0.566	0.0
hypoxia_6wks	0.081	-0.094
glycerol	-0.012	-0.41
cholesterol	-0.776	-0.745
AJ	0.066	0.123
Bibs02	0.584	1.048
Bibs02c	-0.309	-0.452
BL6	-0.288	-0.689
BL6a	0.247	-0.376
BXD01	-0.788	0.395
BXD010	-0.314	-0.392
BXD011	-0.197	-0.929
BXD03	0.133	0.185
BXD04	-0.605	1.351
BXD05	0.323	-0.122
BXD06	-0.356	-0.051
BXD07	-0.169	-0.712
BXD08	-0.752	0.07
BXD09	-0.208	-0.626
CAST	0.287	0.325
CCcont	-0.982	-0.617
DS01	0.08	-0.2
DS02	-1.144	-0.603
DS04	0.561	0.557
DS0c	-1.021	-0.036
GP01	-1.589	-1.394
GP02	-1.539	-1.711
GP0c	-1.783	-1.479
NOD	-0.093	0.69
NZO	-0.669	0.301
PWK	0.213	0.997
H37Rv_KO_CtpC	-0.284	-0.864
H37Rv_KO_CtpD	-1.105	-2.051
H37Rv_KO_Rv1272	-0.589	-0.103
H37Rv_KO_SugABC	-1.767	-1.767
H37Rv_KO_MbtN	0.654	0.555
Trans05	0.029	0.757
macrophage_unactivated	0.603	1.095
IL1	-0.555	-0.326
Rapamycin	0.344	-0.374
Tcell	0.336	-0.248
GMCSF	0.504	0.642
IFNab	0.732	-0.402
IFNg	0.601	-0.056
IFNg_GMCSF1	0.091	1.09
Rv1432_day32	-0.103	1.197
Rv1565c_day32	-0.074	-0.136
secA2_input	-0.809	-0.7
delta_Rv3594	0.127	0.0
delta_Rv3717	-0.355	-0.112
delta_Rv3811	0.241	-0.192
delta_Rv0954	-0.298	-0.238
PonA1	-0.089	-0.763
EccD1_KO	0.309	-0.724
EspI_KO	-1.569	0.476
PE35_KO	-0.236	0.041
PPE68_KO	-0.173	0.253
glycerol2	-0.804	-0.747
lignocerate	-1.136	-1.068
oleate	-0.405	0.739
phosphatidylcholine	-0.606	-0.409
acetate	-1.298	-0.904
glucAc	-1.615	-1.654
Rv0950ko	0.09	-0.787
Rv1096ko	0.262	-0.618
Rv3684ko	-0.167	-0.495
delta_otsA_trehalose	-1.098	-0.773