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 Rv0312/-

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

	Rv0060/-	Rv0312/-
Fe_supp_jason_reseq	0.391	0.638
low_pH_jason_reseq	-1.134	0.331
NO_jason_reseq	0.0	-0.113
B6_jason_reseq	0.0	0.135
MHCII_jason_reseq	0.085	0.678
Isoniazid02	0.263	0.533
Rifampicin4	0.712	-2.296
Ethambutol3	0.505	0.942
Meropenem3	0.662	-0.386
Vancomycin16	0.48	-2.406
Rv2680_day32	-0.554	-1.374
H37Rv_KO_MarP	0.35	0.181
hypoxia_3wks	-0.606	-1.467
hypoxia_6wks	0.146	-0.867
glycerol	0.222	0.619
cholesterol	0.0	0.223
AJ	0.131	-0.771
Bibs02	-1.123	0.686
Bibs02c	0.629	0.235
BL6	0.53	0.49
BL6a	0.595	0.264
BXD01	0.905	-0.476
BXD010	-0.543	0.897
BXD011	0.268	0.297
BXD03	0.52	0.263
BXD04	-0.325	-0.156
BXD05	0.216	-0.135
BXD06	0.342	-0.168
BXD07	0.0	-0.46
BXD08	0.0	-0.358
BXD09	-0.173	-0.216
CAST	0.976	0.402
CCcont	1.498	0.746
DS01	-0.45	-0.056
DS02	1.235	-0.274
DS04	0.312	-1.228
DS0c	-0.737	-0.052
GP01	0.056	-0.396
GP02	-0.283	0.255
GP0c	0.942	-0.614
NOD	0.0	-1.147
NZO	0.6	-1.019
PWK	0.905	-1.159
H37Rv_KO_CtpC	0.977	-0.12
H37Rv_KO_CtpD	0.989	-0.03
H37Rv_KO_Rv1272	0.227	-1.022
H37Rv_KO_SugABC	0.877	0.286
H37Rv_KO_MbtN	-0.633	-0.85
Trans05	-0.554	-1.147
macrophage_unactivated	1.531	-0.489
IL1	-0.297	-0.658
Rapamycin	0.0	0.178
Tcell	1.352	0.094
GMCSF	-0.264	0.227
IFNab	0.0	-0.372
IFNg	-0.551	0.0
IFNg_GMCSF1	-0.314	-0.591
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.218	0.0
secA2_input	0.812	0.0
delta_Rv3594	0.961	0.646
delta_Rv3717	1.851	0.505
delta_Rv3811	1.335	0.752
delta_Rv0954	0.0	-0.115
PonA1	-0.245	0.653
EccD1_KO	0.582	-1.016
EspI_KO	-0.787	-1.135
PE35_KO	-0.589	-1.228
PPE68_KO	-1.133	-0.921
glycerol2	1.964	2.019
lignocerate	2.404	2.557
oleate	-0.688	-0.315
phosphatidylcholine	1.909	2.07
acetate	2.128	3.325
glucAc	1.868	2.617
Rv0950ko	0.639	1.668
Rv1096ko	1.194	0.875
Rv3684ko	0.0	0.684
delta_otsA_trehalose	0.366	0.079