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 Rv3658c/-:

update plot	correlation	link to info on gene
Rv0619/galTb	(cc=0.4425)	info on Rv0619/galTb
Rv3565/aspB	(cc=0.4249)	info on Rv3565/aspB
Rv3438/-	(cc=0.4106)	info on Rv3438/-
Rv3043c/ctaD	(cc=0.4068)	info on Rv3043c/ctaD
Rv3489/-	(cc=0.4013)	info on Rv3489/-
Rv0665/vapC8	(cc=0.3982)	info on Rv0665/vapC8
Rv1365c/rsfA	(cc=0.3935)	info on Rv1365c/rsfA
Rv2849c/cobO	(cc=0.3885)	info on Rv2849c/cobO
Rv3705c/-	(cc=0.3867)	info on Rv3705c/-
Rv3793/embC	(cc=0.3857)	info on Rv3793/embC

Correlation of Rv3658c/- with Rv3565/aspB

Normalized LFCs for Rv3658c/-:
(description and provenance of datasets)

	Rv3658c/-	Rv3565/aspB
Fe_supp_jason_reseq	1.08	0.319
low_pH_jason_reseq	0.341	0.231
NO_jason_reseq	-0.116	0.53
B6_jason_reseq	0.347	-0.689
MHCII_jason_reseq	0.934	0.257
Isoniazid02	-0.215	0.201
Rifampicin4	1.148	0.374
Ethambutol3	0.084	0.168
Meropenem3	0.476	0.315
Vancomycin16	0.682	0.698
Rv2680_day32	0.244	1.252
H37Rv_KO_MarP	0.549	-0.083
hypoxia_3wks	0.291	0.459
hypoxia_6wks	-1.222	-0.127
glycerol	0.26	0.66
cholesterol	-0.156	0.833
AJ	-1.489	-0.255
Bibs02	0.494	0.858
Bibs02c	-0.815	-0.58
BL6	0.659	1.574
BL6a	0.663	0.0
BXD01	0.0	0.426
BXD010	0.276	0.418
BXD011	0.394	0.0
BXD03	1.174	1.003
BXD04	-0.022	-0.524
BXD05	0.578	0.046
BXD06	0.797	0.627
BXD07	0.84	0.521
BXD08	0.462	1.602
BXD09	1.077	0.347
CAST	0.297	0.439
CCcont	1.262	0.328
DS01	-0.041	0.45
DS02	0.699	0.285
DS04	0.649	-0.628
DS0c	0.247	0.919
GP01	0.468	-0.649
GP02	-0.848	-0.955
GP0c	0.044	-0.854
NOD	-1.238	-0.838
NZO	-0.069	-0.144
PWK	-0.669	0.831
H37Rv_KO_CtpC	-0.175	-0.118
H37Rv_KO_CtpD	0.105	-0.832
H37Rv_KO_Rv1272	-0.1	0.31
H37Rv_KO_SugABC	-1.6	-1.038
H37Rv_KO_MbtN	-0.538	-0.9
Trans05	-0.646	-0.487
macrophage_unactivated	-0.915	2.273
IL1	0.851	1.649
Rapamycin	0.445	0.829
Tcell	-0.143	1.105
GMCSF	1.582	0.618
IFNab	0.84	1.125
IFNg	0.227	0.428
IFNg_GMCSF1	0.927	0.383
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.404	-0.147
secA2_input	0.704	-0.348
delta_Rv3594	-0.321	0.22
delta_Rv3717	0.091	-0.201
delta_Rv3811	0.174	-0.116
delta_Rv0954	0.659	0.0
PonA1	1.289	-0.394
EccD1_KO	-0.602	-1.283
EspI_KO	0.465	-1.112
PE35_KO	-1.068	-1.438
PPE68_KO	-0.995	-1.248
glycerol2	-1.033	-1.184
lignocerate	-0.448	-0.587
oleate	-1.131	-0.961
phosphatidylcholine	-0.721	-1.063
acetate	-0.637	-1.453
glucAc	-0.257	-0.814
Rv0950ko	-0.669	1.007
Rv1096ko	-0.567	1.155
Rv3684ko	0.878	1.706
delta_otsA_trehalose	-0.336	0.517