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 Rv0731c/-

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

	Rv2037c/-	Rv0731c/-
Fe_supp_jason_reseq	-2.927	-1.484
low_pH_jason_reseq	-0.816	-0.975
NO_jason_reseq	1.796	0.74
B6_jason_reseq	-0.64	-0.431
MHCII_jason_reseq	-0.376	-0.892
Isoniazid02	-0.418	0.525
Rifampicin4	0.0	-0.317
Ethambutol3	-0.613	-0.98
Meropenem3	-0.276	-0.316
Vancomycin16	-0.064	-0.029
Rv2680_day32	-1.894	-1.232
H37Rv_KO_MarP	-0.265	0.22
hypoxia_3wks	0.606	-0.371
hypoxia_6wks	1.05	0.405
glycerol	-0.758	0.6
cholesterol	-0.847	0.823
AJ	0.61	0.203
Bibs02	-1.482	-0.634
Bibs02c	0.523	0.099
BL6	-0.469	-0.235
BL6a	0.096	-0.08
BXD01	-1.153	-1.353
BXD010	-1.535	-0.525
BXD011	-0.987	-0.128
BXD03	-0.957	-0.845
BXD04	-0.587	-0.662
BXD05	-2.116	0.431
BXD06	-1.747	-0.206
BXD07	-1.281	-0.266
BXD08	-0.378	-0.491
BXD09	-0.95	-0.318
CAST	-0.24	-0.272
CCcont	-1.057	-0.675
DS01	-0.57	0.956
DS02	0.515	1.366
DS04	1.13	1.265
DS0c	0.625	0.644
GP01	0.699	1.001
GP02	2.043	2.425
GP0c	-0.066	0.578
NOD	2.724	1.269
NZO	0.364	-0.272
PWK	-0.783	-0.189
H37Rv_KO_CtpC	-0.498	0.427
H37Rv_KO_CtpD	-1.814	0.892
H37Rv_KO_Rv1272	1.627	-0.451
H37Rv_KO_SugABC	1.04	0.587
H37Rv_KO_MbtN	0.113	0.769
Trans05	-0.459	0.327
macrophage_unactivated	-0.316	-0.158
IL1	0.276	-0.083
Rapamycin	-0.632	-0.052
Tcell	0.303	0.088
GMCSF	0.124	-0.253
IFNab	-0.148	0.0
IFNg	0.484	-0.759
IFNg_GMCSF1	0.148	1.656
Rv1432_day32	-0.568	-0.481
Rv1565c_day32	-0.553	-3.304
secA2_input	1.52	0.191
delta_Rv3594	1.227	0.15
delta_Rv3717	1.436	0.898
delta_Rv3811	0.306	0.0
delta_Rv0954	0.225	-0.221
PonA1	0.275	0.585
EccD1_KO	-0.335	-0.806
EspI_KO	0.271	-0.405
PE35_KO	0.86	-0.044
PPE68_KO	0.496	0.368
glycerol2	-0.475	0.251
lignocerate	-1.259	0.423
oleate	-0.147	0.0
phosphatidylcholine	-0.727	0.053
acetate	-0.708	0.698
glucAc	-2.033	0.114
Rv0950ko	-0.501	-0.356
Rv1096ko	-1.068	0.736
Rv3684ko	-0.544	-0.02
delta_otsA_trehalose	0.696	0.287