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 Rv2919c/glnB:

update plot	correlation	link to info on gene
Rv0887c/-	(cc=0.6094)	info on Rv0887c/-
Rv0570/nrdZ	(cc=0.5991)	info on Rv0570/nrdZ
Rv1974/-	(cc=0.5892)	info on Rv1974/-
Rv3445c/esxU	(cc=0.5796)	info on Rv3445c/esxU
Rv2532c/-	(cc=0.5295)	info on Rv2532c/-
Rv2499c/-	(cc=0.5179)	info on Rv2499c/-
Rv1718/-	(cc=0.5137)	info on Rv1718/-
Rv2328/PE23	(cc=0.5103)	info on Rv2328/PE23
Rv0561c/-	(cc=0.5074)	info on Rv0561c/-
Rv2237/-	(cc=0.5017)	info on Rv2237/-

Correlation of Rv2919c/glnB with Rv2237/-

Normalized LFCs for Rv2919c/glnB:
(description and provenance of datasets)

	Rv2919c/glnB	Rv2237/-
Fe_supp_jason_reseq	0.508	0.23
low_pH_jason_reseq	0.539	-0.676
NO_jason_reseq	-0.331	-0.302
B6_jason_reseq	3.226	-0.548
MHCII_jason_reseq	2.315	0.053
Isoniazid02	0.146	0.397
Rifampicin4	-1.949	-0.674
Ethambutol3	-0.505	-0.32
Meropenem3	-0.763	-0.231
Vancomycin16	-0.138	-0.064
Rv2680_day32	0.131	0.594
H37Rv_KO_MarP	-1.841	0.254
hypoxia_3wks	-0.347	-0.762
hypoxia_6wks	-0.658	-0.814
glycerol	-0.029	0.12
cholesterol	0.141	0.447
AJ	0.402	0.235
Bibs02	1.428	0.013
Bibs02c	-0.797	-0.52
BL6	-1.492	0.847
BL6a	-1.217	0.201
BXD01	0.193	-0.443
BXD010	-1.416	0.241
BXD011	-0.433	0.53
BXD03	-1.103	-0.725
BXD04	0.288	-0.369
BXD05	-0.725	0.165
BXD06	-0.143	0.284
BXD07	-0.194	-0.399
BXD08	-1.586	-0.084
BXD09	-1.06	0.228
CAST	1.308	-0.464
CCcont	-0.209	1.023
DS01	0.979	0.399
DS02	0.857	1.096
DS04	-0.208	0.45
DS0c	0.855	0.129
GP01	0.275	0.95
GP02	-0.955	-0.93
GP0c	0.377	0.356
NOD	-0.314	-0.371
NZO	-1.026	0.35
PWK	0.111	-0.625
H37Rv_KO_CtpC	1.418	-0.013
H37Rv_KO_CtpD	-2.487	-0.315
H37Rv_KO_Rv1272	-2.414	-0.297
H37Rv_KO_SugABC	-1.696	0.422
H37Rv_KO_MbtN	-1.38	0.656
Trans05	-1.024	0.02
macrophage_unactivated	0.354	0.076
IL1	-0.119	0.24
Rapamycin	0.454	-0.11
Tcell	0.124	0.339
GMCSF	0.296	-0.261
IFNab	0.656	0.0
IFNg	-1.513	0.644
IFNg_GMCSF1	1.364	0.628
Rv1432_day32	0.329	-0.01
Rv1565c_day32	0.0	-0.479
secA2_input	0.163	0.252
delta_Rv3594	1.41	1.153
delta_Rv3717	1.305	1.364
delta_Rv3811	0.831	0.772
delta_Rv0954	0.435	0.16
PonA1	1.887	0.84
EccD1_KO	0.898	0.53
EspI_KO	0.485	0.91
PE35_KO	2.042	0.858
PPE68_KO	1.181	0.733
glycerol2	1.044	1.88
lignocerate	2.125	2.527
oleate	-2.481	-1.276
phosphatidylcholine	2.008	2.426
acetate	3.511	2.72
glucAc	2.806	2.503
Rv0950ko	1.508	0.0
Rv1096ko	1.176	-0.078
Rv3684ko	0.314	-0.819
delta_otsA_trehalose	-0.366	-0.569