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 Rv2958c/-:

update plot	correlation	link to info on gene
Rv3121/cyp141	(cc=0.6977)	info on Rv3121/cyp141
Rv0755A/-	(cc=0.6617)	info on Rv0755A/-
Rv2142c/parE2	(cc=0.63)	info on Rv2142c/parE2
Rv2332/mez	(cc=0.6158)	info on Rv2332/mez
Rv1803c/PE_PGRS32	(cc=0.6092)	info on Rv1803c/PE_PGRS32
Rv1374c/-	(cc=0.6034)	info on Rv1374c/-
Rv3238c/-	(cc=0.5691)	info on Rv3238c/-
Rv1814/erg3	(cc=0.5634)	info on Rv1814/erg3
Rv1800/PPE28	(cc=0.5573)	info on Rv1800/PPE28
Rv1917c/PPE34	(cc=0.5512)	info on Rv1917c/PPE34

Correlation of Rv2958c/- with Rv3121/cyp141

Normalized LFCs for Rv2958c/-:
(description and provenance of datasets)

	Rv2958c/-	Rv3121/cyp141
Fe_supp_jason_reseq	0.218	-0.09
low_pH_jason_reseq	-0.591	-0.338
NO_jason_reseq	-0.412	-0.307
B6_jason_reseq	-0.317	-1.005
MHCII_jason_reseq	0.082	0.254
Isoniazid02	0.674	-0.135
Rifampicin4	0.103	0.198
Ethambutol3	0.818	0.185
Meropenem3	0.367	0.127
Vancomycin16	0.257	0.08
Rv2680_day32	0.459	0.085
H37Rv_KO_MarP	0.464	0.317
hypoxia_3wks	0.016	-0.132
hypoxia_6wks	-0.495	-0.15
glycerol	-1.678	-1.676
cholesterol	-0.524	-0.524
AJ	0.212	-0.336
Bibs02	0.257	0.313
Bibs02c	0.382	-0.194
BL6	-0.448	-0.01
BL6a	0.211	-0.601
BXD01	-0.022	-0.436
BXD010	0.164	-0.256
BXD011	0.071	-0.173
BXD03	-0.041	-0.137
BXD04	0.179	-0.073
BXD05	0.198	-0.114
BXD06	-0.162	-0.159
BXD07	-0.105	-0.283
BXD08	0.008	-0.047
BXD09	-0.21	-0.427
CAST	0.092	0.062
CCcont	-0.071	-0.557
DS01	0.269	0.125
DS02	0.263	-0.277
DS04	0.548	-0.108
DS0c	0.225	-0.104
GP01	0.408	0.52
GP02	0.959	0.253
GP0c	-0.35	-0.005
NOD	0.937	1.285
NZO	0.475	-0.071
PWK	0.485	0.111
H37Rv_KO_CtpC	0.377	0.224
H37Rv_KO_CtpD	0.694	1.157
H37Rv_KO_Rv1272	0.96	0.488
H37Rv_KO_SugABC	0.495	-0.26
H37Rv_KO_MbtN	0.425	0.942
Trans05	1.058	0.088
macrophage_unactivated	0.136	0.253
IL1	-0.744	-1.083
Rapamycin	-0.276	-0.694
Tcell	-0.306	-0.411
GMCSF	-0.177	0.259
IFNab	-0.414	-0.157
IFNg	-0.179	-0.299
IFNg_GMCSF1	0.277	0.079
Rv1432_day32	0.365	-0.52
Rv1565c_day32	0.303	0.535
secA2_input	-0.524	-0.571
delta_Rv3594	0.366	0.543
delta_Rv3717	-0.198	-0.092
delta_Rv3811	0.26	-0.098
delta_Rv0954	-0.059	-0.158
PonA1	-0.108	-0.359
EccD1_KO	0.28	0.082
EspI_KO	0.342	0.356
PE35_KO	0.586	0.446
PPE68_KO	0.394	0.525
glycerol2	0.509	0.706
lignocerate	0.6	0.138
oleate	0.509	0.875
phosphatidylcholine	0.71	0.458
acetate	0.166	-0.361
glucAc	0.194	-0.57
Rv0950ko	0.066	0.187
Rv1096ko	-0.682	-0.531
Rv3684ko	-0.465	-0.196
delta_otsA_trehalose	0.014	0.362