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 Rv2271/-:

update plot	correlation	link to info on gene
Rv0235c/-	(cc=0.4109)	info on Rv0235c/-
Rv3446c/-	(cc=0.3877)	info on Rv3446c/-
Rv1581c/-	(cc=0.3805)	info on Rv1581c/-
Rv1049/-	(cc=0.3716)	info on Rv1049/-
Rv0541c/-	(cc=0.3631)	info on Rv0541c/-
Rv3181c/-	(cc=0.361)	info on Rv3181c/-
Rv2927c/-	(cc=0.3578)	info on Rv2927c/-
Rv1214c/PE14	(cc=0.3555)	info on Rv1214c/PE14
Rv0349/-	(cc=0.3553)	info on Rv0349/-
Rv1217c/-	(cc=0.3542)	info on Rv1217c/-

Correlation of Rv2271/- with Rv0541c/-

Normalized LFCs for Rv2271/-:
(description and provenance of datasets)

	Rv2271/-	Rv0541c/-
Fe_supp_jason_reseq	-1.872	0.598
low_pH_jason_reseq	1.482	0.0
NO_jason_reseq	0.507	0.0
B6_jason_reseq	-0.965	0.0
MHCII_jason_reseq	-2.651	0.0
Isoniazid02	0.306	0.0
Rifampicin4	-0.712	0.0
Ethambutol3	-0.089	0.0
Meropenem3	-0.399	0.0
Vancomycin16	0.621	0.0
Rv2680_day32	0.704	0.0
H37Rv_KO_MarP	-0.312	-1.683
hypoxia_3wks	-0.132	0.0
hypoxia_6wks	-0.898	0.0
glycerol	-0.929	0.0
cholesterol	-1.024	0.0
AJ	0.121	0.0
Bibs02	-1.293	0.0
Bibs02c	0.596	0.0
BL6	-0.682	0.0
BL6a	0.397	0.0
BXD01	0.567	0.0
BXD010	0.022	0.0
BXD011	-0.13	0.0
BXD03	1.009	0.0
BXD04	-0.022	0.0
BXD05	0.28	0.0
BXD06	-0.441	0.0
BXD07	0.036	0.0
BXD08	-0.024	0.0
BXD09	0.282	0.0
CAST	0.594	0.0
CCcont	0.321	0.525
DS01	-0.459	0.0
DS02	-1.355	0.0
DS04	1.029	0.0
DS0c	-0.468	0.0
GP01	0.928	0.0
GP02	-0.696	0.0
GP0c	-0.185	0.0
NOD	1.695	0.0
NZO	-1.243	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.808	0.0
H37Rv_KO_CtpD	0.491	0.241
H37Rv_KO_Rv1272	-1.18	0.0
H37Rv_KO_SugABC	0.673	0.0
H37Rv_KO_MbtN	-0.992	0.196
Trans05	-1.378	0.0
macrophage_unactivated	2.459	0.0
IL1	-0.801	0.0
Rapamycin	-1.906	0.0
Tcell	-0.078	0.0
GMCSF	0.805	0.0
IFNab	-0.65	0.0
IFNg	0.094	0.0
IFNg_GMCSF1	-0.424	0.0
Rv1432_day32	-0.794	0.0
Rv1565c_day32	0.63	0.0
secA2_input	-0.322	-1.882
delta_Rv3594	1.663	3.674
delta_Rv3717	1.505	3.71
delta_Rv3811	2.738	4.232
delta_Rv0954	0.929	2.348
PonA1	0.165	-1.235
EccD1_KO	-0.71	-3.887
EspI_KO	-1.109	-3.066
PE35_KO	-0.21	-2.847
PPE68_KO	-0.032	-2.409
glycerol2	0.142	0.0
lignocerate	0.307	0.0
oleate	0.18	0.0
phosphatidylcholine	0.104	0.0
acetate	-0.13	0.0
glucAc	0.244	0.0
Rv0950ko	0.317	-2.813
Rv1096ko	-0.431	0.302
Rv3684ko	-0.989	0.327
delta_otsA_trehalose	-0.578	0.0