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 Rv2219/-

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

	Rv0060/-	Rv2219/-
Fe_supp_jason_reseq	0.391	-0.137
low_pH_jason_reseq	-1.134	-1.282
NO_jason_reseq	0.0	-0.228
B6_jason_reseq	0.0	-0.097
MHCII_jason_reseq	0.085	0.229
Isoniazid02	0.263	0.162
Rifampicin4	0.712	-0.682
Ethambutol3	0.505	-0.146
Meropenem3	0.662	-0.474
Vancomycin16	0.48	-0.669
Rv2680_day32	-0.554	-1.75
H37Rv_KO_MarP	0.35	0.404
hypoxia_3wks	-0.606	-1.655
hypoxia_6wks	0.146	-1.625
glycerol	0.222	0.313
cholesterol	0.0	-0.676
AJ	0.131	0.096
Bibs02	-1.123	1.766
Bibs02c	0.629	-1.605
BL6	0.53	1.144
BL6a	0.595	-1.058
BXD01	0.905	0.534
BXD010	-0.543	-0.684
BXD011	0.268	-0.977
BXD03	0.52	-0.388
BXD04	-0.325	-0.845
BXD05	0.216	0.347
BXD06	0.342	-0.623
BXD07	0.0	0.883
BXD08	0.0	0.467
BXD09	-0.173	-0.122
CAST	0.976	-0.307
CCcont	1.498	1.891
DS01	-0.45	-0.678
DS02	1.235	1.068
DS04	0.312	0.953
DS0c	-0.737	-1.158
GP01	0.056	0.986
GP02	-0.283	-0.388
GP0c	0.942	0.248
NOD	0.0	-0.905
NZO	0.6	-1.065
PWK	0.905	-1.189
H37Rv_KO_CtpC	0.977	-0.558
H37Rv_KO_CtpD	0.989	2.726
H37Rv_KO_Rv1272	0.227	-0.753
H37Rv_KO_SugABC	0.877	-0.677
H37Rv_KO_MbtN	-0.633	-0.296
Trans05	-0.554	-1.121
macrophage_unactivated	1.531	0.234
IL1	-0.297	-2.337
Rapamycin	0.0	-2.418
Tcell	1.352	1.098
GMCSF	-0.264	-2.445
IFNab	0.0	-2.382
IFNg	-0.551	-2.475
IFNg_GMCSF1	-0.314	-2.476
Rv1432_day32	0.0	-0.18
Rv1565c_day32	-0.218	-0.706
secA2_input	0.812	0.0
delta_Rv3594	0.961	2.213
delta_Rv3717	1.851	1.562
delta_Rv3811	1.335	1.487
delta_Rv0954	0.0	0.311
PonA1	-0.245	-0.159
EccD1_KO	0.582	0.697
EspI_KO	-0.787	0.605
PE35_KO	-0.589	1.779
PPE68_KO	-1.133	1.789
glycerol2	1.964	3.845
lignocerate	2.404	3.444
oleate	-0.688	0.0
phosphatidylcholine	1.909	3.37
acetate	2.128	3.661
glucAc	1.868	3.26
Rv0950ko	0.639	-2.433
Rv1096ko	1.194	-2.021
Rv3684ko	0.0	-0.573
delta_otsA_trehalose	0.366	0.321