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 Rv3639c/-:

update plot	correlation	link to info on gene
Rv0839/-	(cc=0.4798)	info on Rv0839/-
Rv0915c/PPE14	(cc=0.397)	info on Rv0915c/PPE14
Rv0864/moaC2	(cc=0.3655)	info on Rv0864/moaC2
Rv0912/-	(cc=0.3631)	info on Rv0912/-
Rv0630c/recB	(cc=0.3611)	info on Rv0630c/recB
Rv0661c/vapC7	(cc=0.3577)	info on Rv0661c/vapC7
Rv3055/-	(cc=0.3489)	info on Rv3055/-
Rv3628/ppa	(cc=0.3467)	info on Rv3628/ppa
Rv3585/radA	(cc=0.3428)	info on Rv3585/radA
Rv1975/-	(cc=0.3411)	info on Rv1975/-

Correlation of Rv3639c/- with Rv0661c/vapC7

Normalized LFCs for Rv3639c/-:
(description and provenance of datasets)

	Rv3639c/-	Rv0661c/vapC7
Fe_supp_jason_reseq	0.983	0.532
low_pH_jason_reseq	-1.625	-1.641
NO_jason_reseq	-0.662	-0.126
B6_jason_reseq	-1.352	-0.607
MHCII_jason_reseq	0.135	0.483
Isoniazid02	0.575	-0.07
Rifampicin4	-0.374	0.233
Ethambutol3	0.354	-0.085
Meropenem3	-0.012	0.229
Vancomycin16	0.133	0.294
Rv2680_day32	1.398	0.544
H37Rv_KO_MarP	0.264	0.109
hypoxia_3wks	-0.718	0.04
hypoxia_6wks	-0.284	-0.106
glycerol	0.669	1.379
cholesterol	0.153	0.762
AJ	0.076	0.109
Bibs02	-0.261	0.168
Bibs02c	0.459	1.219
BL6	-0.442	-0.828
BL6a	0.703	1.19
BXD01	-0.755	0.158
BXD010	0.247	-0.085
BXD011	-0.134	0.373
BXD03	-0.784	-0.669
BXD04	-0.309	0.269
BXD05	0.259	0.426
BXD06	-0.108	0.777
BXD07	-0.198	0.43
BXD08	0.014	0.62
BXD09	0.383	0.844
CAST	0.075	-0.057
CCcont	0.274	0.64
DS01	-0.108	0.435
DS02	0.647	1.185
DS04	-0.458	-0.885
DS0c	0.094	0.2
GP01	1.928	1.068
GP02	-0.405	2.255
GP0c	1.21	1.372
NOD	1.899	-0.371
NZO	1.389	0.724
PWK	0.742	0.122
H37Rv_KO_CtpC	-0.093	0.277
H37Rv_KO_CtpD	1.045	1.52
H37Rv_KO_Rv1272	0.091	-0.575
H37Rv_KO_SugABC	0.42	-0.381
H37Rv_KO_MbtN	-0.414	-0.408
Trans05	-0.89	-0.386
macrophage_unactivated	0.982	0.496
IL1	0.43	0.62
Rapamycin	0.632	1.857
Tcell	0.046	0.0
GMCSF	0.908	-0.288
IFNab	0.478	0.178
IFNg	0.486	1.064
IFNg_GMCSF1	1.379	0.0
Rv1432_day32	-0.812	-0.292
Rv1565c_day32	-0.024	-0.731
secA2_input	-0.396	-1.594
delta_Rv3594	-0.431	-0.39
delta_Rv3717	-0.813	-0.438
delta_Rv3811	-0.358	-1.428
delta_Rv0954	-1.994	-0.267
PonA1	-0.267	-2.763
EccD1_KO	0.562	-0.309
EspI_KO	0.137	0.901
PE35_KO	1.324	0.0
PPE68_KO	1.753	-0.029
glycerol2	0.563	-0.056
lignocerate	0.184	1.139
oleate	-0.096	-1.049
phosphatidylcholine	0.228	0.294
acetate	-0.833	1.052
glucAc	0.168	1.053
Rv0950ko	0.504	-0.766
Rv1096ko	-0.06	-0.703
Rv3684ko	0.658	-0.462
delta_otsA_trehalose	0.654	-0.564