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 Rv0621/-

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

	Rv2037c/-	Rv0621/-
Fe_supp_jason_reseq	-2.927	-0.942
low_pH_jason_reseq	-0.816	-1.062
NO_jason_reseq	1.796	0.105
B6_jason_reseq	-0.64	-0.583
MHCII_jason_reseq	-0.376	0.908
Isoniazid02	-0.418	0.0
Rifampicin4	0.0	0.084
Ethambutol3	-0.613	-0.057
Meropenem3	-0.276	0.565
Vancomycin16	-0.064	0.202
Rv2680_day32	-1.894	-1.194
H37Rv_KO_MarP	-0.265	-0.432
hypoxia_3wks	0.606	-0.403
hypoxia_6wks	1.05	0.269
glycerol	-0.758	-0.154
cholesterol	-0.847	-0.086
AJ	0.61	0.521
Bibs02	-1.482	0.242
Bibs02c	0.523	0.656
BL6	-0.469	-1.893
BL6a	0.096	-0.541
BXD01	-1.153	-1.372
BXD010	-1.535	-1.278
BXD011	-0.987	-1.603
BXD03	-0.957	-0.951
BXD04	-0.587	-0.976
BXD05	-2.116	-1.437
BXD06	-1.747	-2.02
BXD07	-1.281	-0.623
BXD08	-0.378	-1.46
BXD09	-0.95	-1.346
CAST	-0.24	-0.137
CCcont	-1.057	-1.113
DS01	-0.57	0.849
DS02	0.515	0.238
DS04	1.13	1.301
DS0c	0.625	0.663
GP01	0.699	-2.326
GP02	2.043	-0.402
GP0c	-0.066	-1.195
NOD	2.724	0.265
NZO	0.364	0.101
PWK	-0.783	-0.496
H37Rv_KO_CtpC	-0.498	-0.227
H37Rv_KO_CtpD	-1.814	-1.508
H37Rv_KO_Rv1272	1.627	0.702
H37Rv_KO_SugABC	1.04	-1.747
H37Rv_KO_MbtN	0.113	0.088
Trans05	-0.459	-0.035
macrophage_unactivated	-0.316	0.044
IL1	0.276	-0.311
Rapamycin	-0.632	-0.466
Tcell	0.303	-1.166
GMCSF	0.124	-0.116
IFNab	-0.148	-0.707
IFNg	0.484	0.115
IFNg_GMCSF1	0.148	0.974
Rv1432_day32	-0.568	0.707
Rv1565c_day32	-0.553	0.0
secA2_input	1.52	1.852
delta_Rv3594	1.227	1.288
delta_Rv3717	1.436	0.664
delta_Rv3811	0.306	0.581
delta_Rv0954	0.225	0.631
PonA1	0.275	0.885
EccD1_KO	-0.335	0.73
EspI_KO	0.271	0.756
PE35_KO	0.86	0.773
PPE68_KO	0.496	0.71
glycerol2	-0.475	-0.249
lignocerate	-1.259	0.012
oleate	-0.147	-0.091
phosphatidylcholine	-0.727	-0.266
acetate	-0.708	-0.522
glucAc	-2.033	-0.184
Rv0950ko	-0.501	0.736
Rv1096ko	-1.068	0.645
Rv3684ko	-0.544	-0.115
delta_otsA_trehalose	0.696	0.916