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 Rv0761c/adhB

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

	Rv0693/pqqE	Rv0761c/adhB
Fe_supp_jason_reseq	-0.884	-1.214
low_pH_jason_reseq	-0.668	-1.106
NO_jason_reseq	-0.27	0.525
B6_jason_reseq	-0.952	-1.15
MHCII_jason_reseq	-0.809	-1.012
Isoniazid02	0.172	-2.039
Rifampicin4	0.0	-0.005
Ethambutol3	0.925	-1.214
Meropenem3	0.728	0.323
Vancomycin16	0.093	-1.281
Rv2680_day32	-1.501	-0.275
H37Rv_KO_MarP	0.306	0.095
hypoxia_3wks	0.163	0.75
hypoxia_6wks	1.178	0.731
glycerol	-0.275	0.448
cholesterol	-2.261	-3.535
AJ	-0.617	-0.457
Bibs02	-1.003	-1.84
Bibs02c	-0.285	-0.385
BL6	-0.779	-0.021
BL6a	0.521	0.251
BXD01	-0.177	0.527
BXD010	0.08	0.049
BXD011	0.436	0.305
BXD03	0.214	0.618
BXD04	-0.511	0.947
BXD05	0.482	0.365
BXD06	0.259	0.451
BXD07	0.34	0.393
BXD08	0.92	0.319
BXD09	0.72	0.682
CAST	-0.809	-1.286
CCcont	0.765	0.276
DS01	-1.867	-1.459
DS02	-1.355	-0.474
DS04	0.197	0.053
DS0c	-0.349	-0.644
GP01	0.736	1.012
GP02	-0.134	-0.671
GP0c	0.942	0.197
NOD	-1.076	0.194
NZO	-1.403	-0.42
PWK	0.516	-0.102
H37Rv_KO_CtpC	-0.724	-0.703
H37Rv_KO_CtpD	0.2	-0.495
H37Rv_KO_Rv1272	0.0	1.06
H37Rv_KO_SugABC	0.21	0.868
H37Rv_KO_MbtN	0.541	0.838
Trans05	1.707	0.296
macrophage_unactivated	-1.42	-1.054
IL1	1.278	1.492
Rapamycin	0.924	1.415
Tcell	-0.303	-0.098
GMCSF	-0.792	-1.597
IFNab	-0.583	-1.143
IFNg	-0.845	-1.31
IFNg_GMCSF1	-0.424	-1.455
Rv1432_day32	-0.746	-1.147
Rv1565c_day32	0.741	-1.328
secA2_input	0.617	0.474
delta_Rv3594	-0.174	0.18
delta_Rv3717	-0.143	0.497
delta_Rv3811	-0.229	0.309
delta_Rv0954	-0.199	-0.587
PonA1	-0.249	-0.951
EccD1_KO	0.72	-0.934
EspI_KO	0.625	-0.396
PE35_KO	0.184	-0.242
PPE68_KO	0.522	0.048
glycerol2	2.306	1.457
lignocerate	0.281	-0.823
oleate	0.8	1.459
phosphatidylcholine	1.356	1.091
acetate	0.791	-0.313
glucAc	1.188	-0.153
Rv0950ko	-0.124	0.558
Rv1096ko	0.935	0.579
Rv3684ko	0.96	0.891
delta_otsA_trehalose	0.044	-0.596