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 Rv2671/ribD:

update plot	correlation	link to info on gene
Rv2728c/-	(cc=0.6129)	info on Rv2728c/-
Rv2141c/-	(cc=0.5007)	info on Rv2141c/-
Rv2047c/-	(cc=0.4952)	info on Rv2047c/-
Rv0650/-	(cc=0.4936)	info on Rv0650/-
Rv1069c/-	(cc=0.4901)	info on Rv1069c/-
Rv0249c/-	(cc=0.4633)	info on Rv0249c/-
Rv1070c/echA8	(cc=0.462)	info on Rv1070c/echA8
Rv3535c/hsaG	(cc=0.4609)	info on Rv3535c/hsaG
Rv0450c/mmpL4	(cc=0.46)	info on Rv0450c/mmpL4
Rv2475c/-	(cc=0.4597)	info on Rv2475c/-

Correlation of Rv2671/ribD with Rv0650/-

Normalized LFCs for Rv2671/ribD:
(description and provenance of datasets)

	Rv2671/ribD	Rv0650/-
Fe_supp_jason_reseq	-0.797	-1.301
low_pH_jason_reseq	-0.032	-0.748
NO_jason_reseq	-2.701	-0.772
B6_jason_reseq	-0.623	-0.437
MHCII_jason_reseq	-1.191	0.252
Isoniazid02	0.162	0.639
Rifampicin4	0.452	1.481
Ethambutol3	0.565	1.792
Meropenem3	1.182	0.304
Vancomycin16	0.568	0.735
Rv2680_day32	-1.786	0.326
H37Rv_KO_MarP	0.419	0.446
hypoxia_3wks	-0.726	-0.235
hypoxia_6wks	-2.24	-1.503
glycerol	0.284	2.342
cholesterol	0.246	1.387
AJ	-0.879	1.168
Bibs02	1.098	0.503
Bibs02c	-0.976	1.44
BL6	0.256	0.63
BL6a	-1.003	0.684
BXD01	-0.77	-0.164
BXD010	-0.72	0.486
BXD011	-0.81	-0.383
BXD03	-0.741	-0.73
BXD04	-1.037	-0.692
BXD05	-1.376	-1.163
BXD06	-0.474	-0.37
BXD07	-0.701	-0.042
BXD08	-0.141	0.366
BXD09	-0.916	-0.235
CAST	-0.956	0.402
CCcont	0.166	0.913
DS01	0.152	1.738
DS02	1.375	1.47
DS04	-0.689	-0.422
DS0c	0.545	1.466
GP01	-0.077	0.919
GP02	0.181	0.057
GP0c	0.886	0.669
NOD	-0.962	0.805
NZO	-0.211	0.308
PWK	-0.719	0.627
H37Rv_KO_CtpC	-1.137	-0.752
H37Rv_KO_CtpD	-0.95	0.661
H37Rv_KO_Rv1272	0.505	-0.095
H37Rv_KO_SugABC	0.041	0.316
H37Rv_KO_MbtN	-1.341	-2.29
Trans05	0.451	0.298
macrophage_unactivated	-0.862	0.574
IL1	0.638	2.058
Rapamycin	0.39	0.672
Tcell	0.0	-0.368
GMCSF	-1.17	0.322
IFNab	0.692	0.846
IFNg	-0.839	0.668
IFNg_GMCSF1	-0.858	0.927
Rv1432_day32	-1.272	0.692
Rv1565c_day32	-1.076	-0.415
secA2_input	1.058	1.669
delta_Rv3594	0.694	-0.463
delta_Rv3717	-0.36	0.515
delta_Rv3811	0.225	-0.076
delta_Rv0954	0.324	1.26
PonA1	0.066	0.375
EccD1_KO	-0.181	1.151
EspI_KO	0.183	0.325
PE35_KO	-0.16	-0.814
PPE68_KO	-0.877	-0.566
glycerol2	0.408	0.137
lignocerate	0.749	0.788
oleate	0.829	-0.544
phosphatidylcholine	0.56	0.416
acetate	0.484	-0.115
glucAc	0.507	0.453
Rv0950ko	0.528	1.493
Rv1096ko	0.856	3.088
Rv3684ko	0.488	3.76
delta_otsA_trehalose	-0.545	-0.197