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 Rv0693/pqqE:

update plot	correlation	link to info on gene
Rv0761c/adhB	(cc=0.6177)	info on Rv0761c/adhB
Rv3492c/-	(cc=0.6086)	info on Rv3492c/-
Rv3501c/yrbE4A	(cc=0.5976)	info on Rv3501c/yrbE4A
Rv3497c/mce4C	(cc=0.5904)	info on Rv3497c/mce4C
Rv3500c/yrbE4B	(cc=0.5829)	info on Rv3500c/yrbE4B
Rv3496c/mce4D	(cc=0.5784)	info on Rv3496c/mce4D
Rv3498c/mce4B	(cc=0.5631)	info on Rv3498c/mce4B
Rv3526/kshA	(cc=0.5624)	info on Rv3526/kshA
Rv3499c/mce4A	(cc=0.5498)	info on Rv3499c/mce4A
Rv2147c/-	(cc=0.5255)	info on Rv2147c/-

Correlation of Rv0693/pqqE with Rv2147c/-

Normalized LFCs for Rv0693/pqqE:
(description and provenance of datasets)

	Rv0693/pqqE	Rv2147c/-
Fe_supp_jason_reseq	-0.884	-1.733
low_pH_jason_reseq	-0.668	0.345
NO_jason_reseq	-0.27	-0.438
B6_jason_reseq	-0.952	-1.49
MHCII_jason_reseq	-0.809	-0.968
Isoniazid02	0.172	0.284
Rifampicin4	0.0	0.731
Ethambutol3	0.925	0.0
Meropenem3	0.728	0.353
Vancomycin16	0.093	-0.785
Rv2680_day32	-1.501	-1.559
H37Rv_KO_MarP	0.306	-2.052
hypoxia_3wks	0.163	0.12
hypoxia_6wks	1.178	0.77
glycerol	-0.275	-0.287
cholesterol	-2.261	-0.917
AJ	-0.617	-0.713
Bibs02	-1.003	0.229
Bibs02c	-0.285	-0.867
BL6	-0.779	2.015
BL6a	0.521	0.346
BXD01	-0.177	0.441
BXD010	0.08	0.703
BXD011	0.436	1.578
BXD03	0.214	-0.45
BXD04	-0.511	0.848
BXD05	0.482	0.855
BXD06	0.259	0.916
BXD07	0.34	0.22
BXD08	0.92	0.605
BXD09	0.72	0.907
CAST	-0.809	-1.625
CCcont	0.765	0.917
DS01	-1.867	-1.495
DS02	-1.355	-1.303
DS04	0.197	-0.499
DS0c	-0.349	-1.09
GP01	0.736	1.579
GP02	-0.134	0.281
GP0c	0.942	1.526
NOD	-1.076	-1.129
NZO	-1.403	-1.195
PWK	0.516	-0.504
H37Rv_KO_CtpC	-0.724	0.892
H37Rv_KO_CtpD	0.2	1.682
H37Rv_KO_Rv1272	0.0	1.279
H37Rv_KO_SugABC	0.21	1.939
H37Rv_KO_MbtN	0.541	0.794
Trans05	1.707	1.45
macrophage_unactivated	-1.42	0.167
IL1	1.278	1.059
Rapamycin	0.924	0.687
Tcell	-0.303	0.42
GMCSF	-0.792	0.591
IFNab	-0.583	0.275
IFNg	-0.845	-0.072
IFNg_GMCSF1	-0.424	0.405
Rv1432_day32	-0.746	0.933
Rv1565c_day32	0.741	0.818
secA2_input	0.617	0.255
delta_Rv3594	-0.174	1.767
delta_Rv3717	-0.143	1.939
delta_Rv3811	-0.229	0.996
delta_Rv0954	-0.199	-0.021
PonA1	-0.249	-1.117
EccD1_KO	0.72	0.71
EspI_KO	0.625	-0.588
PE35_KO	0.184	-0.42
PPE68_KO	0.522	0.298
glycerol2	2.306	2.091
lignocerate	0.281	2.954
oleate	0.8	0.123
phosphatidylcholine	1.356	2.342
acetate	0.791	2.733
glucAc	1.188	2.576
Rv0950ko	-0.124	-1.646
Rv1096ko	0.935	-0.241
Rv3684ko	0.96	-0.174
delta_otsA_trehalose	0.044	0.079