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 Rv2190c/-:

update plot	correlation	link to info on gene
Rv1836c/-	(cc=0.8008)	info on Rv1836c/-
Rv2696c/-	(cc=0.7379)	info on Rv2696c/-
Rv3207c/-	(cc=0.7377)	info on Rv3207c/-
Rv3818/-	(cc=0.7001)	info on Rv3818/-
Rv2553c/-	(cc=0.6903)	info on Rv2553c/-
Rv1821/secA2	(cc=0.6858)	info on Rv1821/secA2
Rv0309/-	(cc=0.6767)	info on Rv0309/-
Rv0929/pstC2	(cc=0.6758)	info on Rv0929/pstC2
Rv0820/phoT	(cc=0.6667)	info on Rv0820/phoT
Rv0431/-	(cc=0.6494)	info on Rv0431/-

Correlation of Rv2190c/- with Rv3207c/-

Normalized LFCs for Rv2190c/-:
(description and provenance of datasets)

	Rv2190c/-	Rv3207c/-
Fe_supp_jason_reseq	2.516	2.441
low_pH_jason_reseq	-0.221	-0.415
NO_jason_reseq	-3.877	-3.783
B6_jason_reseq	-0.596	-1.385
MHCII_jason_reseq	-0.565	0.141
Isoniazid02	0.563	-1.224
Rifampicin4	-3.541	-2.989
Ethambutol3	-2.182	-0.546
Meropenem3	-0.786	-0.283
Vancomycin16	-4.51	-3.783
Rv2680_day32	2.417	0.095
H37Rv_KO_MarP	-6.0	-5.574
hypoxia_3wks	-2.767	-2.759
hypoxia_6wks	-0.228	-3.101
glycerol	-0.098	0.325
cholesterol	2.214	1.336
AJ	-1.276	-0.324
Bibs02	0.993	-0.775
Bibs02c	1.306	-1.341
BL6	3.063	0.292
BL6a	2.749	0.244
BXD01	2.595	0.729
BXD010	2.438	-0.179
BXD011	2.323	0.464
BXD03	2.42	0.45
BXD04	2.446	-0.113
BXD05	3.337	0.49
BXD06	3.167	0.996
BXD07	2.933	0.223
BXD08	2.286	-0.564
BXD09	3.087	1.049
CAST	-1.088	-0.976
CCcont	3.364	2.818
DS01	1.001	-0.216
DS02	0.0	1.045
DS04	1.359	0.384
DS0c	1.298	0.652
GP01	1.498	0.818
GP02	-0.128	0.638
GP0c	1.031	-0.317
NOD	-1.061	-0.099
NZO	-1.263	-0.98
PWK	-0.786	-0.706
H37Rv_KO_CtpC	2.295	1.212
H37Rv_KO_CtpD	1.805	0.997
H37Rv_KO_Rv1272	2.512	1.863
H37Rv_KO_SugABC	1.815	1.078
H37Rv_KO_MbtN	4.046	0.893
Trans05	2.172	0.393
macrophage_unactivated	0.076	1.635
IL1	0.575	-0.86
Rapamycin	-0.23	0.196
Tcell	-0.329	-0.691
GMCSF	0.568	1.428
IFNab	1.103	1.351
IFNg	1.563	0.492
IFNg_GMCSF1	0.575	0.842
Rv1432_day32	2.996	1.623
Rv1565c_day32	0.0	0.218
secA2_input	-4.612	-1.027
delta_Rv3594	2.299	0.344
delta_Rv3717	2.896	-0.098
delta_Rv3811	2.019	0.315
delta_Rv0954	0.358	-1.018
PonA1	-0.825	-0.416
EccD1_KO	-1.766	0.648
EspI_KO	-1.634	0.893
PE35_KO	-3.246	-0.968
PPE68_KO	-1.411	0.266
glycerol2	-0.531	0.254
lignocerate	-0.462	-0.392
oleate	-0.537	-0.829
phosphatidylcholine	-0.531	-0.626
acetate	1.15	1.225
glucAc	0.213	0.572
Rv0950ko	-6.0	-5.5
Rv1096ko	-1.176	-0.335
Rv3684ko	-0.364	0.783
delta_otsA_trehalose	1.066	-0.052