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 Rv3572/-

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

	Rv3525c/-	Rv3572/-
Fe_supp_jason_reseq	-0.846	-0.139
low_pH_jason_reseq	-0.386	-0.264
NO_jason_reseq	-0.69	-0.202
B6_jason_reseq	-0.584	0.012
MHCII_jason_reseq	-0.066	0.547
Isoniazid02	-2.03	-3.923
Rifampicin4	0.56	0.401
Ethambutol3	-1.992	-3.468
Meropenem3	-2.554	-3.484
Vancomycin16	-0.915	-1.318
Rv2680_day32	1.002	-0.799
H37Rv_KO_MarP	1.054	0.941
hypoxia_3wks	0.566	0.279
hypoxia_6wks	0.081	1.142
glycerol	-0.012	0.749
cholesterol	-0.776	-0.787
AJ	0.066	-0.741
Bibs02	0.584	-0.204
Bibs02c	-0.309	0.197
BL6	-0.288	0.576
BL6a	0.247	-0.191
BXD01	-0.788	-0.693
BXD010	-0.314	0.129
BXD011	-0.197	2.982
BXD03	0.133	-0.526
BXD04	-0.605	-0.158
BXD05	0.323	-1.114
BXD06	-0.356	-0.679
BXD07	-0.169	-0.752
BXD08	-0.752	-0.617
BXD09	-0.208	-0.081
CAST	0.287	-0.083
CCcont	-0.982	-0.521
DS01	0.08	-0.228
DS02	-1.144	-0.594
DS04	0.561	0.119
DS0c	-1.021	0.405
GP01	-1.589	-0.374
GP02	-1.539	-0.715
GP0c	-1.783	-0.506
NOD	-0.093	-0.805
NZO	-0.669	-1.108
PWK	0.213	-1.043
H37Rv_KO_CtpC	-0.284	0.153
H37Rv_KO_CtpD	-1.105	0.952
H37Rv_KO_Rv1272	-0.589	-1.486
H37Rv_KO_SugABC	-1.767	-1.973
H37Rv_KO_MbtN	0.654	-0.38
Trans05	0.029	0.072
macrophage_unactivated	0.603	0.3
IL1	-0.555	0.249
Rapamycin	0.344	0.037
Tcell	0.336	0.196
GMCSF	0.504	-0.795
IFNab	0.732	0.254
IFNg	0.601	0.879
IFNg_GMCSF1	0.091	-0.534
Rv1432_day32	-0.103	0.636
Rv1565c_day32	-0.074	-0.186
secA2_input	-0.809	1.705
delta_Rv3594	0.127	-0.838
delta_Rv3717	-0.355	-0.25
delta_Rv3811	0.241	-0.641
delta_Rv0954	-0.298	-0.098
PonA1	-0.089	0.457
EccD1_KO	0.309	0.375
EspI_KO	-1.569	-0.354
PE35_KO	-0.236	-0.058
PPE68_KO	-0.173	-0.032
glycerol2	-0.804	-1.211
lignocerate	-1.136	-0.806
oleate	-0.405	-0.251
phosphatidylcholine	-0.606	-0.588
acetate	-1.298	-0.386
glucAc	-1.615	-0.778
Rv0950ko	0.09	-0.16
Rv1096ko	0.262	0.787
Rv3684ko	-0.167	-0.216
delta_otsA_trehalose	-1.098	-0.685