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 Rv1245c/-:

update plot	correlation	link to info on gene
Rv2088/pknJ	(cc=0.4545)	info on Rv2088/pknJ
Rv0731c/-	(cc=0.4479)	info on Rv0731c/-
Rv1831/-	(cc=0.4248)	info on Rv1831/-
Rv2770c/PPE44	(cc=0.4242)	info on Rv2770c/PPE44
Rv2695/-	(cc=0.418)	info on Rv2695/-
Rv0576/-	(cc=0.4057)	info on Rv0576/-
Rv2495c/bkdC	(cc=0.4046)	info on Rv2495c/bkdC
Rv3521/-	(cc=0.4045)	info on Rv3521/-
Rv2618/-	(cc=0.3913)	info on Rv2618/-
Rv3268/-	(cc=0.3895)	info on Rv3268/-

Correlation of Rv1245c/- with Rv2695/-

Normalized LFCs for Rv1245c/-:
(description and provenance of datasets)

	Rv1245c/-	Rv2695/-
Fe_supp_jason_reseq	-0.677	0.0
low_pH_jason_reseq	-0.534	-0.8
NO_jason_reseq	-0.084	0.711
B6_jason_reseq	-1.086	-0.11
MHCII_jason_reseq	-0.021	0.544
Isoniazid02	-0.386	0.664
Rifampicin4	0.314	0.799
Ethambutol3	0.241	0.759
Meropenem3	0.183	0.167
Vancomycin16	-0.082	0.074
Rv2680_day32	-0.198	1.658
H37Rv_KO_MarP	-0.056	-0.137
hypoxia_3wks	0.12	0.0
hypoxia_6wks	0.585	0.85
glycerol	-0.051	-0.098
cholesterol	-0.101	0.328
AJ	-0.203	1.126
Bibs02	-0.886	1.22
Bibs02c	0.53	0.527
BL6	-0.478	0.703
BL6a	0.352	0.743
BXD01	-0.253	1.038
BXD010	-0.414	0.948
BXD011	-0.369	0.722
BXD03	-0.501	0.514
BXD04	0.764	0.342
BXD05	-0.012	1.327
BXD06	-0.081	0.224
BXD07	-0.401	0.771
BXD08	1.002	1.103
BXD09	-0.36	0.479
CAST	-0.245	0.053
CCcont	-0.305	0.178
DS01	0.453	1.935
DS02	-0.211	1.531
DS04	1.19	2.09
DS0c	0.141	0.965
GP01	0.677	2.283
GP02	1.268	2.524
GP0c	0.388	2.06
NOD	-0.303	-0.146
NZO	-0.533	0.704
PWK	-0.421	0.432
H37Rv_KO_CtpC	0.368	1.098
H37Rv_KO_CtpD	0.321	0.851
H37Rv_KO_Rv1272	0.179	1.466
H37Rv_KO_SugABC	0.017	1.415
H37Rv_KO_MbtN	-0.179	1.95
Trans05	0.777	1.609
macrophage_unactivated	0.218	0.366
IL1	0.178	1.038
Rapamycin	0.184	1.04
Tcell	-0.453	0.358
GMCSF	0.235	-0.071
IFNab	0.121	-0.039
IFNg	0.08	-0.861
IFNg_GMCSF1	0.707	0.167
Rv1432_day32	0.155	2.315
Rv1565c_day32	-1.632	-0.531
secA2_input	-0.798	-0.495
delta_Rv3594	0.106	-0.424
delta_Rv3717	0.273	-0.293
delta_Rv3811	0.0	-0.958
delta_Rv0954	-0.047	-0.603
PonA1	0.285	-1.173
EccD1_KO	0.668	0.681
EspI_KO	-0.068	0.08
PE35_KO	0.306	0.379
PPE68_KO	-0.32	0.397
glycerol2	0.06	-0.577
lignocerate	-0.457	-0.828
oleate	0.411	-0.478
phosphatidylcholine	-0.139	-2.76
acetate	-0.426	-0.771
glucAc	-0.459	-0.837
Rv0950ko	0.063	0.802
Rv1096ko	0.0	0.365
Rv3684ko	0.233	0.652
delta_otsA_trehalose	-1.386	-1.39