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 Rv1975/-

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

	Rv3639c/-	Rv1975/-
Fe_supp_jason_reseq	0.983	-0.128
low_pH_jason_reseq	-1.625	-0.473
NO_jason_reseq	-0.662	0.517
B6_jason_reseq	-1.352	0.133
MHCII_jason_reseq	0.135	0.415
Isoniazid02	0.575	0.096
Rifampicin4	-0.374	0.089
Ethambutol3	0.354	1.943
Meropenem3	-0.012	0.381
Vancomycin16	0.133	0.257
Rv2680_day32	1.398	0.284
H37Rv_KO_MarP	0.264	0.117
hypoxia_3wks	-0.718	0.279
hypoxia_6wks	-0.284	0.363
glycerol	0.669	1.173
cholesterol	0.153	0.434
AJ	0.076	-0.366
Bibs02	-0.261	0.417
Bibs02c	0.459	-0.32
BL6	-0.442	-0.777
BL6a	0.703	-0.601
BXD01	-0.755	-0.199
BXD010	0.247	0.253
BXD011	-0.134	-0.238
BXD03	-0.784	-0.294
BXD04	-0.309	-0.148
BXD05	0.259	0.103
BXD06	-0.108	0.049
BXD07	-0.198	0.132
BXD08	0.014	0.211
BXD09	0.383	-0.091
CAST	0.075	-0.397
CCcont	0.274	-0.387
DS01	-0.108	0.375
DS02	0.647	-0.312
DS04	-0.458	-0.16
DS0c	0.094	0.321
GP01	1.928	0.376
GP02	-0.405	0.865
GP0c	1.21	0.257
NOD	1.899	0.932
NZO	1.389	-0.475
PWK	0.742	-0.101
H37Rv_KO_CtpC	-0.093	-0.02
H37Rv_KO_CtpD	1.045	-0.384
H37Rv_KO_Rv1272	0.091	-0.542
H37Rv_KO_SugABC	0.42	-0.488
H37Rv_KO_MbtN	-0.414	-0.137
Trans05	-0.89	0.064
macrophage_unactivated	0.982	0.492
IL1	0.43	0.495
Rapamycin	0.632	0.829
Tcell	0.046	-0.189
GMCSF	0.908	0.602
IFNab	0.478	0.242
IFNg	0.486	0.927
IFNg_GMCSF1	1.379	1.059
Rv1432_day32	-0.812	-0.035
Rv1565c_day32	-0.024	-1.362
secA2_input	-0.396	0.142
delta_Rv3594	-0.431	-0.652
delta_Rv3717	-0.813	-0.482
delta_Rv3811	-0.358	-0.623
delta_Rv0954	-1.994	-0.39
PonA1	-0.267	-0.559
EccD1_KO	0.562	0.483
EspI_KO	0.137	1.027
PE35_KO	1.324	0.907
PPE68_KO	1.753	0.976
glycerol2	0.563	-0.597
lignocerate	0.184	-0.597
oleate	-0.096	0.027
phosphatidylcholine	0.228	-0.436
acetate	-0.833	-1.092
glucAc	0.168	-0.891
Rv0950ko	0.504	0.775
Rv1096ko	-0.06	0.452
Rv3684ko	0.658	0.956
delta_otsA_trehalose	0.654	-0.873