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 Rv1571/-:

update plot	correlation	link to info on gene
Rv3902c/-	(cc=0.5757)	info on Rv3902c/-
Rv1023/eno	(cc=0.5614)	info on Rv1023/eno
Rv2507/-	(cc=0.5152)	info on Rv2507/-
Rv2166c/-	(cc=0.4925)	info on Rv2166c/-
Rv1850/ureC	(cc=0.4867)	info on Rv1850/ureC
Rv2266/cyp124	(cc=0.475)	info on Rv2266/cyp124
Rv2359/zur	(cc=0.4729)	info on Rv2359/zur
Rv2674/msrB	(cc=0.463)	info on Rv2674/msrB
Rv1465/-	(cc=0.4537)	info on Rv1465/-
Rv1135c/PPE16	(cc=0.4424)	info on Rv1135c/PPE16

Correlation of Rv1571/- with Rv1465/-

Normalized LFCs for Rv1571/-:
(description and provenance of datasets)

	Rv1571/-	Rv1465/-
Fe_supp_jason_reseq	0.923	-1.579
low_pH_jason_reseq	-1.419	-0.095
NO_jason_reseq	-2.226	-3.258
B6_jason_reseq	-0.403	-0.991
MHCII_jason_reseq	-0.829	-1.348
Isoniazid02	-0.063	0.0
Rifampicin4	1.346	0.0
Ethambutol3	0.53	0.0
Meropenem3	0.981	0.0
Vancomycin16	0.525	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.772	0.476
hypoxia_3wks	0.0	0.0
hypoxia_6wks	-0.288	-0.549
glycerol	-0.202	-1.609
cholesterol	0.659	0.19
AJ	-0.232	0.079
Bibs02	-0.183	-0.273
Bibs02c	-0.209	-1.241
BL6	-0.125	-1.436
BL6a	-0.198	-1.301
BXD01	-0.13	-1.496
BXD010	-0.128	-1.471
BXD011	-0.127	-1.113
BXD03	-0.135	-1.553
BXD04	-0.124	-1.42
BXD05	-0.135	-1.545
BXD06	-0.133	-1.533
BXD07	0.0	-1.59
BXD08	-0.133	-1.527
BXD09	-0.14	-1.614
CAST	0.581	-1.099
CCcont	0.376	-1.715
DS01	1.075	-1.001
DS02	-0.217	-2.083
DS04	1.495	-1.546
DS0c	-0.217	1.112
GP01	-0.099	-1.134
GP02	-0.083	-0.872
GP0c	-0.13	-1.036
NOD	-0.225	-1.476
NZO	-0.199	-0.845
PWK	0.0	-1.563
H37Rv_KO_CtpC	-0.162	1.665
H37Rv_KO_CtpD	0.116	-0.092
H37Rv_KO_Rv1272	3.081	-0.457
H37Rv_KO_SugABC	0.09	-1.137
H37Rv_KO_MbtN	-0.103	-0.987
Trans05	1.796	-0.554
macrophage_unactivated	-0.83	-0.83
IL1	0.0	-0.78
Rapamycin	3.591	-0.807
Tcell	1.352	-0.857
GMCSF	-0.694	-0.694
IFNab	0.0	-0.795
IFNg	-0.703	-0.703
IFNg_GMCSF1	-0.826	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.398	-0.377
delta_Rv3594	2.091	-0.742
delta_Rv3717	1.72	0.126
delta_Rv3811	-0.116	-0.721
delta_Rv0954	1.84	1.957
PonA1	0.0	-0.56
EccD1_KO	2.0	1.059
EspI_KO	3.73	1.891
PE35_KO	2.497	1.21
PPE68_KO	2.086	0.71
glycerol2	0.0	0.0
lignocerate	0.462	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-3.395	-2.376
Rv1096ko	-0.38	-1.65
Rv3684ko	-1.359	-3.033
delta_otsA_trehalose	0.0	-0.564