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 Rv0169/mce1A:

update plot	correlation	link to info on gene
Rv0172/mce1D	(cc=0.9328)	info on Rv0172/mce1D
Rv0174/mce1F	(cc=0.9275)	info on Rv0174/mce1F
Rv0173/lprK	(cc=0.9112)	info on Rv0173/lprK
Rv0171/mce1C	(cc=0.8938)	info on Rv0171/mce1C
Rv0170/mce1B	(cc=0.8405)	info on Rv0170/mce1B
Rv0168/yrbE1B	(cc=0.8245)	info on Rv0168/yrbE1B
Rv0167/yrbE1A	(cc=0.8148)	info on Rv0167/yrbE1A
Rv0175/-	(cc=0.8075)	info on Rv0175/-
Rv0176/-	(cc=0.7901)	info on Rv0176/-
Rv0178/-	(cc=0.7654)	info on Rv0178/-

Correlation of Rv0169/mce1A with Rv0172/mce1D

Normalized LFCs for Rv0169/mce1A:
(description and provenance of datasets)

	Rv0169/mce1A	Rv0172/mce1D
Fe_supp_jason_reseq	0.674	0.494
low_pH_jason_reseq	0.581	0.942
NO_jason_reseq	2.46	2.326
B6_jason_reseq	0.209	0.236
MHCII_jason_reseq	-0.879	-0.915
Isoniazid02	-0.501	-1.544
Rifampicin4	1.451	1.638
Ethambutol3	0.444	0.285
Meropenem3	2.361	1.174
Vancomycin16	1.825	1.125
Rv2680_day32	0.351	0.036
H37Rv_KO_MarP	0.457	0.494
hypoxia_3wks	2.173	1.786
hypoxia_6wks	2.222	1.625
glycerol	0.388	-0.856
cholesterol	1.052	0.313
AJ	-0.168	-0.134
Bibs02	-2.951	-2.327
Bibs02c	-2.284	-2.543
BL6	0.631	0.729
BL6a	-1.444	-0.946
BXD01	0.805	0.643
BXD010	0.846	0.201
BXD011	0.412	0.468
BXD03	0.827	0.722
BXD04	0.592	0.686
BXD05	0.512	0.515
BXD06	0.075	-0.318
BXD07	0.797	0.764
BXD08	0.301	0.006
BXD09	0.734	0.98
CAST	-0.766	-1.18
CCcont	-0.006	0.201
DS01	-2.392	-3.042
DS02	-1.793	-2.614
DS04	-0.783	-0.652
DS0c	-2.292	-2.49
GP01	-1.538	-1.38
GP02	-1.501	-1.297
GP0c	-0.702	-0.704
NOD	-0.163	-0.314
NZO	1.186	0.996
PWK	-1.319	-1.404
H37Rv_KO_CtpC	-0.468	-0.765
H37Rv_KO_CtpD	-0.573	-0.05
H37Rv_KO_Rv1272	0.587	-0.018
H37Rv_KO_SugABC	1.394	0.329
H37Rv_KO_MbtN	0.256	-0.281
Trans05	0.501	0.011
macrophage_unactivated	-0.625	-0.193
IL1	-1.48	-1.714
Rapamycin	-1.97	-1.596
Tcell	-1.659	-1.603
GMCSF	0.153	0.187
IFNab	0.133	0.366
IFNg	0.118	0.323
IFNg_GMCSF1	0.16	-0.324
Rv1432_day32	0.408	0.162
Rv1565c_day32	-1.906	-1.813
secA2_input	-0.794	-0.18
delta_Rv3594	0.233	0.177
delta_Rv3717	0.568	0.364
delta_Rv3811	-0.098	-0.245
delta_Rv0954	0.382	0.191
PonA1	0.272	0.201
EccD1_KO	-0.579	0.155
EspI_KO	-0.613	-0.302
PE35_KO	-0.213	-0.018
PPE68_KO	0.179	0.0
glycerol2	-0.254	0.121
lignocerate	-2.656	-2.221
oleate	0.759	0.855
phosphatidylcholine	-0.725	-0.546
acetate	0.658	0.904
glucAc	0.451	0.288
Rv0950ko	0.513	0.112
Rv1096ko	-0.018	-0.57
Rv3684ko	0.537	0.747
delta_otsA_trehalose	0.014	-0.065