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 Rv1917c/PPE34

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

	Rv0755A/-	Rv1917c/PPE34
Fe_supp_jason_reseq	-0.003	0.756
low_pH_jason_reseq	-1.183	-0.311
NO_jason_reseq	0.641	0.15
B6_jason_reseq	-0.037	0.621
MHCII_jason_reseq	0.719	0.641
Isoniazid02	-0.234	0.063
Rifampicin4	-0.287	0.173
Ethambutol3	0.878	0.472
Meropenem3	0.081	0.435
Vancomycin16	0.13	0.0
Rv2680_day32	0.433	0.08
H37Rv_KO_MarP	0.285	-0.09
hypoxia_3wks	0.008	-0.327
hypoxia_6wks	-0.132	-0.048
glycerol	-2.717	-0.107
cholesterol	-1.446	0.128
AJ	0.069	0.57
Bibs02	0.759	0.162
Bibs02c	1.164	0.318
BL6	-0.146	-0.053
BL6a	0.946	0.471
BXD01	0.308	0.587
BXD010	0.189	0.534
BXD011	0.529	0.557
BXD03	0.461	-0.042
BXD04	0.334	0.582
BXD05	0.646	0.634
BXD06	0.275	0.566
BXD07	0.168	0.283
BXD08	0.405	0.237
BXD09	0.479	0.465
CAST	0.242	0.489
CCcont	-0.236	0.059
DS01	0.216	0.71
DS02	0.318	0.517
DS04	0.259	0.492
DS0c	0.779	0.368
GP01	-0.621	0.503
GP02	0.938	0.523
GP0c	0.059	0.496
NOD	0.882	0.657
NZO	0.513	0.522
PWK	-0.162	0.281
H37Rv_KO_CtpC	0.494	0.743
H37Rv_KO_CtpD	0.847	1.346
H37Rv_KO_Rv1272	0.686	1.285
H37Rv_KO_SugABC	0.306	1.237
H37Rv_KO_MbtN	0.801	0.899
Trans05	0.751	1.105
macrophage_unactivated	-0.477	0.275
IL1	0.044	-0.116
Rapamycin	0.175	-0.203
Tcell	-0.062	0.44
GMCSF	0.034	0.325
IFNab	-0.532	-0.366
IFNg	-0.011	0.035
IFNg_GMCSF1	-0.735	-0.082
Rv1432_day32	-0.246	0.139
Rv1565c_day32	0.602	0.366
secA2_input	-0.836	-0.675
delta_Rv3594	-0.081	0.503
delta_Rv3717	-0.472	0.072
delta_Rv3811	-0.17	0.363
delta_Rv0954	0.036	-0.36
PonA1	-0.018	-0.493
EccD1_KO	0.036	-0.138
EspI_KO	-0.471	-0.12
PE35_KO	-0.543	-0.123
PPE68_KO	0.23	-0.067
glycerol2	0.773	0.303
lignocerate	0.968	0.424
oleate	0.78	0.289
phosphatidylcholine	1.234	0.641
acetate	-0.09	0.209
glucAc	-0.181	0.274
Rv0950ko	0.413	-0.187
Rv1096ko	-0.808	-0.841
Rv3684ko	-1.005	-0.796
delta_otsA_trehalose	0.236	-0.262