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 Rv2037c/-:

update plot	correlation	link to info on gene
Rv0621/-	(cc=0.4691)	info on Rv0621/-
Rv0449c/-	(cc=0.4524)	info on Rv0449c/-
Rv3362c/-	(cc=0.445)	info on Rv3362c/-
Rv0731c/-	(cc=0.4333)	info on Rv0731c/-
Rv0004/-	(cc=0.4332)	info on Rv0004/-
Rv1104/-	(cc=0.4268)	info on Rv1104/-
Rv1267c/embR	(cc=0.424)	info on Rv1267c/embR
Rv0764c/cyp51	(cc=0.4185)	info on Rv0764c/cyp51
Rv2601/speE	(cc=0.4173)	info on Rv2601/speE
Rv2123/PPE37	(cc=0.4057)	info on Rv2123/PPE37

Correlation of Rv2037c/- with Rv0004/-

Normalized LFCs for Rv2037c/-:
(description and provenance of datasets)

	Rv2037c/-	Rv0004/-
Fe_supp_jason_reseq	-2.927	0.0
low_pH_jason_reseq	-0.816	0.0
NO_jason_reseq	1.796	0.0
B6_jason_reseq	-0.64	0.0
MHCII_jason_reseq	-0.376	0.0
Isoniazid02	-0.418	0.851
Rifampicin4	0.0	-0.712
Ethambutol3	-0.613	0.14
Meropenem3	-0.276	0.266
Vancomycin16	-0.064	-0.698
Rv2680_day32	-1.894	0.0
H37Rv_KO_MarP	-0.265	-1.865
hypoxia_3wks	0.606	0.0
hypoxia_6wks	1.05	0.0
glycerol	-0.758	0.385
cholesterol	-0.847	0.0
AJ	0.61	0.0
Bibs02	-1.482	0.0
Bibs02c	0.523	0.0
BL6	-0.469	0.0
BL6a	0.096	0.0
BXD01	-1.153	0.0
BXD010	-1.535	0.0
BXD011	-0.987	0.0
BXD03	-0.957	0.0
BXD04	-0.587	0.0
BXD05	-2.116	0.0
BXD06	-1.747	0.0
BXD07	-1.281	0.0
BXD08	-0.378	0.0
BXD09	-0.95	0.0
CAST	-0.24	1.785
CCcont	-1.057	0.0
DS01	-0.57	0.0
DS02	0.515	0.0
DS04	1.13	0.533
DS0c	0.625	0.0
GP01	0.699	2.861
GP02	2.043	1.416
GP0c	-0.066	1.663
NOD	2.724	4.852
NZO	0.364	0.0
PWK	-0.783	0.0
H37Rv_KO_CtpC	-0.498	0.0
H37Rv_KO_CtpD	-1.814	0.127
H37Rv_KO_Rv1272	1.627	0.0
H37Rv_KO_SugABC	1.04	0.55
H37Rv_KO_MbtN	0.113	0.283
Trans05	-0.459	0.0
macrophage_unactivated	-0.316	0.0
IL1	0.276	0.0
Rapamycin	-0.632	0.0
Tcell	0.303	0.0
GMCSF	0.124	0.0
IFNab	-0.148	0.0
IFNg	0.484	0.0
IFNg_GMCSF1	0.148	0.826
Rv1432_day32	-0.568	0.0
Rv1565c_day32	-0.553	0.0
secA2_input	1.52	1.526
delta_Rv3594	1.227	0.828
delta_Rv3717	1.436	3.253
delta_Rv3811	0.306	1.387
delta_Rv0954	0.225	-0.178
PonA1	0.275	-0.159
EccD1_KO	-0.335	0.0
EspI_KO	0.271	0.0
PE35_KO	0.86	0.368
PPE68_KO	0.496	0.403
glycerol2	-0.475	0.0
lignocerate	-1.259	0.0
oleate	-0.147	0.0
phosphatidylcholine	-0.727	0.0
acetate	-0.708	0.0
glucAc	-2.033	0.0
Rv0950ko	-0.501	-0.793
Rv1096ko	-1.068	1.517
Rv3684ko	-0.544	1.055
delta_otsA_trehalose	0.696	0.0