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 Rv0060/-:

update plot	correlation	link to info on gene
Rv2219/-	(cc=0.5267)	info on Rv2219/-
Rv0945/-	(cc=0.526)	info on Rv0945/-
Rv3819/-	(cc=0.5134)	info on Rv3819/-
Rv2237/-	(cc=0.5052)	info on Rv2237/-
Rv3224B/-	(cc=0.5046)	info on Rv3224B/-
Rv3224A/-	(cc=0.5002)	info on Rv3224A/-
Rv0312/-	(cc=0.4982)	info on Rv0312/-
Rv1987/-	(cc=0.4959)	info on Rv1987/-
Rv0887c/-	(cc=0.486)	info on Rv0887c/-
Rv3217c/-	(cc=0.4839)	info on Rv3217c/-

Correlation of Rv0060/- with Rv3217c/-

Normalized LFCs for Rv0060/-:
(description and provenance of datasets)

	Rv0060/-	Rv3217c/-
Fe_supp_jason_reseq	0.391	1.552
low_pH_jason_reseq	-1.134	0.915
NO_jason_reseq	0.0	-0.583
B6_jason_reseq	0.0	3.158
MHCII_jason_reseq	0.085	-1.442
Isoniazid02	0.263	-0.419
Rifampicin4	0.712	0.338
Ethambutol3	0.505	0.015
Meropenem3	0.662	0.393
Vancomycin16	0.48	0.417
Rv2680_day32	-0.554	-2.096
H37Rv_KO_MarP	0.35	0.151
hypoxia_3wks	-0.606	-2.333
hypoxia_6wks	0.146	-0.451
glycerol	0.222	-2.028
cholesterol	0.0	-1.607
AJ	0.131	-0.852
Bibs02	-1.123	-3.04
Bibs02c	0.629	-0.749
BL6	0.53	1.636
BL6a	0.595	0.547
BXD01	0.905	-1.47
BXD010	-0.543	0.088
BXD011	0.268	0.133
BXD03	0.52	0.758
BXD04	-0.325	-0.388
BXD05	0.216	-0.61
BXD06	0.342	-1.64
BXD07	0.0	-1.73
BXD08	0.0	-0.643
BXD09	-0.173	-0.847
CAST	0.976	0.614
CCcont	1.498	0.457
DS01	-0.45	-1.167
DS02	1.235	-1.237
DS04	0.312	-1.561
DS0c	-0.737	-0.607
GP01	0.056	1.169
GP02	-0.283	0.881
GP0c	0.942	0.488
NOD	0.0	-1.38
NZO	0.6	-1.871
PWK	0.905	-1.115
H37Rv_KO_CtpC	0.977	0.848
H37Rv_KO_CtpD	0.989	1.613
H37Rv_KO_Rv1272	0.227	0.113
H37Rv_KO_SugABC	0.877	2.251
H37Rv_KO_MbtN	-0.633	0.41
Trans05	-0.554	0.976
macrophage_unactivated	1.531	-0.988
IL1	-0.297	-0.833
Rapamycin	0.0	-1.132
Tcell	1.352	-0.811
GMCSF	-0.264	-1.663
IFNab	0.0	0.106
IFNg	-0.551	-0.583
IFNg_GMCSF1	-0.314	-1.728
Rv1432_day32	0.0	-0.608
Rv1565c_day32	-0.218	-1.275
secA2_input	0.812	-0.332
delta_Rv3594	0.961	1.253
delta_Rv3717	1.851	0.978
delta_Rv3811	1.335	1.254
delta_Rv0954	0.0	1.215
PonA1	-0.245	1.588
EccD1_KO	0.582	1.408
EspI_KO	-0.787	1.152
PE35_KO	-0.589	-0.23
PPE68_KO	-1.133	0.061
glycerol2	1.964	2.081
lignocerate	2.404	3.315
oleate	-0.688	0.0
phosphatidylcholine	1.909	3.084
acetate	2.128	4.414
glucAc	1.868	4.344
Rv0950ko	0.639	0.211
Rv1096ko	1.194	-0.808
Rv3684ko	0.0	-0.626
delta_otsA_trehalose	0.366	0.39