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 Rv1917c/PPE34

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

	Rv2958c/-	Rv1917c/PPE34
Fe_supp_jason_reseq	0.218	0.756
low_pH_jason_reseq	-0.591	-0.311
NO_jason_reseq	-0.412	0.15
B6_jason_reseq	-0.317	0.621
MHCII_jason_reseq	0.082	0.641
Isoniazid02	0.674	0.063
Rifampicin4	0.103	0.173
Ethambutol3	0.818	0.472
Meropenem3	0.367	0.435
Vancomycin16	0.257	0.0
Rv2680_day32	0.459	0.08
H37Rv_KO_MarP	0.464	-0.09
hypoxia_3wks	0.016	-0.327
hypoxia_6wks	-0.495	-0.048
glycerol	-1.678	-0.107
cholesterol	-0.524	0.128
AJ	0.212	0.57
Bibs02	0.257	0.162
Bibs02c	0.382	0.318
BL6	-0.448	-0.053
BL6a	0.211	0.471
BXD01	-0.022	0.587
BXD010	0.164	0.534
BXD011	0.071	0.557
BXD03	-0.041	-0.042
BXD04	0.179	0.582
BXD05	0.198	0.634
BXD06	-0.162	0.566
BXD07	-0.105	0.283
BXD08	0.008	0.237
BXD09	-0.21	0.465
CAST	0.092	0.489
CCcont	-0.071	0.059
DS01	0.269	0.71
DS02	0.263	0.517
DS04	0.548	0.492
DS0c	0.225	0.368
GP01	0.408	0.503
GP02	0.959	0.523
GP0c	-0.35	0.496
NOD	0.937	0.657
NZO	0.475	0.522
PWK	0.485	0.281
H37Rv_KO_CtpC	0.377	0.743
H37Rv_KO_CtpD	0.694	1.346
H37Rv_KO_Rv1272	0.96	1.285
H37Rv_KO_SugABC	0.495	1.237
H37Rv_KO_MbtN	0.425	0.899
Trans05	1.058	1.105
macrophage_unactivated	0.136	0.275
IL1	-0.744	-0.116
Rapamycin	-0.276	-0.203
Tcell	-0.306	0.44
GMCSF	-0.177	0.325
IFNab	-0.414	-0.366
IFNg	-0.179	0.035
IFNg_GMCSF1	0.277	-0.082
Rv1432_day32	0.365	0.139
Rv1565c_day32	0.303	0.366
secA2_input	-0.524	-0.675
delta_Rv3594	0.366	0.503
delta_Rv3717	-0.198	0.072
delta_Rv3811	0.26	0.363
delta_Rv0954	-0.059	-0.36
PonA1	-0.108	-0.493
EccD1_KO	0.28	-0.138
EspI_KO	0.342	-0.12
PE35_KO	0.586	-0.123
PPE68_KO	0.394	-0.067
glycerol2	0.509	0.303
lignocerate	0.6	0.424
oleate	0.509	0.289
phosphatidylcholine	0.71	0.641
acetate	0.166	0.209
glucAc	0.194	0.274
Rv0950ko	0.066	-0.187
Rv1096ko	-0.682	-0.841
Rv3684ko	-0.465	-0.796
delta_otsA_trehalose	0.014	-0.262