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 Rv3238c/-

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

	Rv2958c/-	Rv3238c/-
Fe_supp_jason_reseq	0.218	-0.284
low_pH_jason_reseq	-0.591	-1.181
NO_jason_reseq	-0.412	-0.412
B6_jason_reseq	-0.317	-0.232
MHCII_jason_reseq	0.082	0.04
Isoniazid02	0.674	0.583
Rifampicin4	0.103	0.412
Ethambutol3	0.818	1.198
Meropenem3	0.367	0.873
Vancomycin16	0.257	0.09
Rv2680_day32	0.459	-0.093
H37Rv_KO_MarP	0.464	0.426
hypoxia_3wks	0.016	-0.227
hypoxia_6wks	-0.495	0.019
glycerol	-1.678	-0.834
cholesterol	-0.524	-0.074
AJ	0.212	0.282
Bibs02	0.257	-0.57
Bibs02c	0.382	0.441
BL6	-0.448	-0.079
BL6a	0.211	0.184
BXD01	-0.022	0.159
BXD010	0.164	-0.315
BXD011	0.071	0.0
BXD03	-0.041	0.249
BXD04	0.179	0.702
BXD05	0.198	-0.225
BXD06	-0.162	0.249
BXD07	-0.105	0.174
BXD08	0.008	-0.2
BXD09	-0.21	-0.041
CAST	0.092	0.082
CCcont	-0.071	0.031
DS01	0.269	0.14
DS02	0.263	0.307
DS04	0.548	0.72
DS0c	0.225	0.399
GP01	0.408	0.234
GP02	0.959	0.51
GP0c	-0.35	-0.267
NOD	0.937	0.519
NZO	0.475	-0.202
PWK	0.485	0.59
H37Rv_KO_CtpC	0.377	0.781
H37Rv_KO_CtpD	0.694	-0.056
H37Rv_KO_Rv1272	0.96	0.424
H37Rv_KO_SugABC	0.495	0.385
H37Rv_KO_MbtN	0.425	0.479
Trans05	1.058	0.706
macrophage_unactivated	0.136	0.259
IL1	-0.744	0.033
Rapamycin	-0.276	0.0
Tcell	-0.306	0.055
GMCSF	-0.177	0.576
IFNab	-0.414	0.148
IFNg	-0.179	0.807
IFNg_GMCSF1	0.277	0.437
Rv1432_day32	0.365	-0.137
Rv1565c_day32	0.303	-0.141
secA2_input	-0.524	-0.507
delta_Rv3594	0.366	0.401
delta_Rv3717	-0.198	-0.059
delta_Rv3811	0.26	-0.15
delta_Rv0954	-0.059	0.243
PonA1	-0.108	-0.34
EccD1_KO	0.28	0.316
EspI_KO	0.342	1.212
PE35_KO	0.586	1.03
PPE68_KO	0.394	1.088
glycerol2	0.509	0.502
lignocerate	0.6	0.514
oleate	0.509	0.625
phosphatidylcholine	0.71	0.501
acetate	0.166	0.105
glucAc	0.194	0.016
Rv0950ko	0.066	0.289
Rv1096ko	-0.682	-0.166
Rv3684ko	-0.465	0.727
delta_otsA_trehalose	0.014	-0.38