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 Rv3134c/-:

update plot	correlation	link to info on gene
Rv0042c/-	(cc=0.4637)	info on Rv0042c/-
Rv0472c/-	(cc=0.4616)	info on Rv0472c/-
Rv3428c/-	(cc=0.4586)	info on Rv3428c/-
Rv0821c/phoY2	(cc=0.4373)	info on Rv0821c/phoY2
Rv3301c/phoY1	(cc=0.4182)	info on Rv3301c/phoY1
Rv0825c/-	(cc=0.4136)	info on Rv0825c/-
Rv3816c/-	(cc=0.4134)	info on Rv3816c/-
Rv0739/-	(cc=0.4099)	info on Rv0739/-
Rv3667/acs	(cc=0.4087)	info on Rv3667/acs
Rv0871/cspB	(cc=0.4082)	info on Rv0871/cspB

Correlation of Rv3134c/- with Rv0825c/-

Normalized LFCs for Rv3134c/-:
(description and provenance of datasets)

	Rv3134c/-	Rv0825c/-
Fe_supp_jason_reseq	0.0	0.644
low_pH_jason_reseq	-0.492	-0.539
NO_jason_reseq	-0.063	-0.57
B6_jason_reseq	0.733	1.213
MHCII_jason_reseq	1.14	1.855
Isoniazid02	0.333	0.377
Rifampicin4	-0.03	-0.487
Ethambutol3	0.421	-0.817
Meropenem3	-0.52	-1.351
Vancomycin16	0.042	-0.814
Rv2680_day32	0.543	1.002
H37Rv_KO_MarP	-0.069	-1.341
hypoxia_3wks	-3.054	-0.71
hypoxia_6wks	-1.042	-1.852
glycerol	-0.633	0.781
cholesterol	-0.469	1.127
AJ	-0.146	1.595
Bibs02	0.595	0.989
Bibs02c	-0.308	1.407
BL6	1.749	0.841
BL6a	0.159	1.743
BXD01	-0.13	1.138
BXD010	0.373	0.795
BXD011	0.597	0.555
BXD03	0.772	1.529
BXD04	0.13	0.717
BXD05	0.86	2.059
BXD06	0.154	1.857
BXD07	0.811	1.115
BXD08	0.465	0.304
BXD09	0.256	1.298
CAST	0.711	1.276
CCcont	0.286	0.852
DS01	0.009	1.162
DS02	1.353	0.573
DS04	0.32	1.204
DS0c	0.765	0.608
GP01	0.315	0.656
GP02	-0.512	1.001
GP0c	-0.01	0.997
NOD	0.304	0.392
NZO	0.052	0.614
PWK	-1.276	0.992
H37Rv_KO_CtpC	-0.945	-0.341
H37Rv_KO_CtpD	-0.852	-0.232
H37Rv_KO_Rv1272	0.005	-0.141
H37Rv_KO_SugABC	0.799	1.676
H37Rv_KO_MbtN	1.522	2.888
Trans05	0.369	1.056
macrophage_unactivated	0.473	-0.193
IL1	0.753	-0.59
Rapamycin	0.448	0.135
Tcell	-0.026	0.189
GMCSF	0.087	0.531
IFNab	1.264	0.305
IFNg	-0.559	0.657
IFNg_GMCSF1	-0.013	1.414
Rv1432_day32	2.211	4.953
Rv1565c_day32	0.148	-0.498
secA2_input	0.077	0.543
delta_Rv3594	0.78	0.474
delta_Rv3717	1.355	0.977
delta_Rv3811	0.806	0.346
delta_Rv0954	0.456	-0.3
PonA1	0.212	-1.223
EccD1_KO	-1.289	0.375
EspI_KO	-0.83	0.784
PE35_KO	-0.688	-0.222
PPE68_KO	-0.797	0.451
glycerol2	0.586	-0.24
lignocerate	1.436	-0.094
oleate	0.492	0.645
phosphatidylcholine	0.919	-0.221
acetate	0.695	0.042
glucAc	0.655	0.192
Rv0950ko	-0.172	-0.175
Rv1096ko	0.323	0.552
Rv3684ko	-0.534	0.917
delta_otsA_trehalose	-0.396	-0.716