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 Rv0755A/-:

update plot	correlation	link to info on gene
Rv2958c/-	(cc=0.6617)	info on Rv2958c/-
Rv2142c/parE2	(cc=0.5426)	info on Rv2142c/parE2
Rv1917c/PPE34	(cc=0.5378)	info on Rv1917c/PPE34
Rv3738c/PPE66	(cc=0.5334)	info on Rv3738c/PPE66
Rv1500/-	(cc=0.5308)	info on Rv1500/-
Rv0830/-	(cc=0.5195)	info on Rv0830/-
Rv3429/PPE59	(cc=0.511)	info on Rv3429/PPE59
Rv0403c/mmpS1	(cc=0.5107)	info on Rv0403c/mmpS1
Rv3121/cyp141	(cc=0.494)	info on Rv3121/cyp141
Rv1861/-	(cc=0.4873)	info on Rv1861/-

Correlation of Rv0755A/- with Rv2142c/parE2

Normalized LFCs for Rv0755A/-:
(description and provenance of datasets)

	Rv0755A/-	Rv2142c/parE2
Fe_supp_jason_reseq	-0.003	-1.225
low_pH_jason_reseq	-1.183	-0.974
NO_jason_reseq	0.641	-0.543
B6_jason_reseq	-0.037	-0.423
MHCII_jason_reseq	0.719	0.684
Isoniazid02	-0.234	0.112
Rifampicin4	-0.287	0.133
Ethambutol3	0.878	1.125
Meropenem3	0.081	0.327
Vancomycin16	0.13	-0.263
Rv2680_day32	0.433	0.358
H37Rv_KO_MarP	0.285	-0.013
hypoxia_3wks	0.008	-0.052
hypoxia_6wks	-0.132	0.38
glycerol	-2.717	-1.513
cholesterol	-1.446	-0.494
AJ	0.069	0.385
Bibs02	0.759	0.607
Bibs02c	1.164	-0.058
BL6	-0.146	-0.252
BL6a	0.946	-0.122
BXD01	0.308	-0.004
BXD010	0.189	0.156
BXD011	0.529	-0.238
BXD03	0.461	0.282
BXD04	0.334	-0.041
BXD05	0.646	0.399
BXD06	0.275	-0.104
BXD07	0.168	-0.108
BXD08	0.405	-0.057
BXD09	0.479	-0.228
CAST	0.242	0.377
CCcont	-0.236	-0.42
DS01	0.216	0.715
DS02	0.318	0.991
DS04	0.259	-0.006
DS0c	0.779	1.009
GP01	-0.621	0.088
GP02	0.938	0.005
GP0c	0.059	-0.423
NOD	0.882	0.519
NZO	0.513	0.105
PWK	-0.162	0.823
H37Rv_KO_CtpC	0.494	0.172
H37Rv_KO_CtpD	0.847	-0.326
H37Rv_KO_Rv1272	0.686	0.688
H37Rv_KO_SugABC	0.306	0.245
H37Rv_KO_MbtN	0.801	0.158
Trans05	0.751	0.698
macrophage_unactivated	-0.477	0.234
IL1	0.044	-0.955
Rapamycin	0.175	-0.147
Tcell	-0.062	-0.094
GMCSF	0.034	-0.285
IFNab	-0.532	-0.311
IFNg	-0.011	-0.543
IFNg_GMCSF1	-0.735	-0.182
Rv1432_day32	-0.246	0.521
Rv1565c_day32	0.602	-0.262
secA2_input	-0.836	-0.26
delta_Rv3594	-0.081	0.477
delta_Rv3717	-0.472	0.437
delta_Rv3811	-0.17	0.202
delta_Rv0954	0.036	0.863
PonA1	-0.018	0.212
EccD1_KO	0.036	0.26
EspI_KO	-0.471	0.06
PE35_KO	-0.543	-0.257
PPE68_KO	0.23	-0.013
glycerol2	0.773	0.685
lignocerate	0.968	0.85
oleate	0.78	1.187
phosphatidylcholine	1.234	1.181
acetate	-0.09	0.407
glucAc	-0.181	-0.012
Rv0950ko	0.413	-0.093
Rv1096ko	-0.808	-0.386
Rv3684ko	-1.005	-0.488
delta_otsA_trehalose	0.236	-0.109