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 Rv1398c/vapB10:

update plot	correlation	link to info on gene
Rv1430/PE16	(cc=0.4664)	info on Rv1430/PE16
Rv2792c/-	(cc=0.4533)	info on Rv2792c/-
Rv1962A/vapB35	(cc=0.4515)	info on Rv1962A/vapB35
Rv1505c/-	(cc=0.4461)	info on Rv1505c/-
Rv3166c/-	(cc=0.4167)	info on Rv3166c/-
Rv1954c/-	(cc=0.405)	info on Rv1954c/-
Rv2248/-	(cc=0.4039)	info on Rv2248/-
Rv3698/-	(cc=0.4008)	info on Rv3698/-
Rv2545/vapB18	(cc=0.4001)	info on Rv2545/vapB18
Rv2818c/-	(cc=0.3992)	info on Rv2818c/-

Correlation of Rv1398c/vapB10 with Rv1505c/-

Normalized LFCs for Rv1398c/vapB10:
(description and provenance of datasets)

	Rv1398c/vapB10	Rv1505c/-
Fe_supp_jason_reseq	-0.834	0.398
low_pH_jason_reseq	-0.773	-0.35
NO_jason_reseq	-0.189	0.247
B6_jason_reseq	-1.519	-1.795
MHCII_jason_reseq	0.368	-1.356
Isoniazid02	0.976	1.695
Rifampicin4	-1.018	-0.244
Ethambutol3	1.727	0.896
Meropenem3	-0.223	-0.284
Vancomycin16	-0.305	0.0
Rv2680_day32	-0.968	-0.332
H37Rv_KO_MarP	-0.59	-0.579
hypoxia_3wks	0.622	-0.144
hypoxia_6wks	-1.006	0.0
glycerol	1.81	-0.396
cholesterol	0.282	-0.847
AJ	-0.373	-0.071
Bibs02	0.083	0.604
Bibs02c	0.638	-0.567
BL6	1.081	1.544
BL6a	0.763	1.908
BXD01	0.968	1.315
BXD010	0.777	1.351
BXD011	-0.125	1.424
BXD03	0.847	1.73
BXD04	0.663	1.686
BXD05	-0.159	1.878
BXD06	0.061	2.076
BXD07	0.93	1.562
BXD08	1.599	1.373
BXD09	0.359	2.422
CAST	0.085	0.709
CCcont	0.833	1.366
DS01	1.266	0.204
DS02	-0.654	-1.511
DS04	1.114	0.641
DS0c	1.315	-0.506
GP01	-1.062	0.539
GP02	0.618	0.938
GP0c	0.768	0.511
NOD	2.298	2.294
NZO	-0.808	-0.786
PWK	-0.449	0.274
H37Rv_KO_CtpC	1.43	1.294
H37Rv_KO_CtpD	1.668	2.274
H37Rv_KO_Rv1272	1.593	1.29
H37Rv_KO_SugABC	-1.297	-0.748
H37Rv_KO_MbtN	-1.419	1.363
Trans05	0.529	1.179
macrophage_unactivated	0.799	0.167
IL1	0.575	0.489
Rapamycin	0.534	0.203
Tcell	2.281	0.73
GMCSF	-0.124	-0.219
IFNab	0.556	0.16
IFNg	0.676	-0.072
IFNg_GMCSF1	0.179	0.167
Rv1432_day32	0.911	0.288
Rv1565c_day32	0.199	-0.292
secA2_input	-1.766	-1.018
delta_Rv3594	0.734	0.197
delta_Rv3717	-0.274	-0.56
delta_Rv3811	0.819	0.223
delta_Rv0954	0.017	0.656
PonA1	-0.375	-0.164
EccD1_KO	-0.747	0.059
EspI_KO	-0.191	-0.163
PE35_KO	1.219	-0.055
PPE68_KO	1.245	-0.368
glycerol2	0.287	-0.488
lignocerate	0.18	-0.477
oleate	0.79	-0.432
phosphatidylcholine	0.753	-0.098
acetate	-0.166	-0.848
glucAc	-0.53	-1.106
Rv0950ko	0.084	0.6
Rv1096ko	0.166	-0.525
Rv3684ko	-1.389	0.311
delta_otsA_trehalose	0.099	1.395