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 Rv1344/mbtL:

update plot	correlation	link to info on gene
Rv0877/-	(cc=0.491)	info on Rv0877/-
Rv3135/PPE50	(cc=0.4572)	info on Rv3135/PPE50
Rv0458/-	(cc=0.4367)	info on Rv0458/-
Rv2081c/-	(cc=0.4298)	info on Rv2081c/-
Rv1115/-	(cc=0.4277)	info on Rv1115/-
Rv1105/-	(cc=0.413)	info on Rv1105/-
Rv1546/-	(cc=0.403)	info on Rv1546/-
Rv0826/-	(cc=0.3995)	info on Rv0826/-
Rv3718c/-	(cc=0.3969)	info on Rv3718c/-
Rv3714c/-	(cc=0.3941)	info on Rv3714c/-

Correlation of Rv1344/mbtL with Rv3714c/-

Normalized LFCs for Rv1344/mbtL:
(description and provenance of datasets)

	Rv1344/mbtL	Rv3714c/-
Fe_supp_jason_reseq	0.928	-0.398
low_pH_jason_reseq	-0.475	-0.363
NO_jason_reseq	1.814	0.011
B6_jason_reseq	1.5	0.719
MHCII_jason_reseq	0.15	1.035
Isoniazid02	1.43	0.778
Rifampicin4	0.043	-0.011
Ethambutol3	1.155	0.55
Meropenem3	0.822	-0.108
Vancomycin16	0.846	1.387
Rv2680_day32	1.582	0.488
H37Rv_KO_MarP	-0.303	0.169
hypoxia_3wks	0.231	0.49
hypoxia_6wks	0.812	1.184
glycerol	-2.212	-1.508
cholesterol	-1.461	-0.909
AJ	0.24	0.202
Bibs02	-0.191	-0.147
Bibs02c	-0.077	0.108
BL6	-0.664	-0.168
BL6a	0.036	-0.013
BXD01	0.561	0.43
BXD010	0.943	0.139
BXD011	1.258	0.21
BXD03	0.465	0.323
BXD04	0.312	0.597
BXD05	1.026	-0.14
BXD06	0.854	0.267
BXD07	1.218	0.08
BXD08	0.418	0.297
BXD09	0.635	0.279
CAST	-0.359	0.607
CCcont	-0.633	-0.643
DS01	1.203	0.433
DS02	1.358	0.651
DS04	0.103	1.023
DS0c	0.361	0.638
GP01	0.061	-0.144
GP02	0.061	0.641
GP0c	-0.499	-0.46
NOD	-0.01	1.111
NZO	0.627	0.526
PWK	-0.412	0.367
H37Rv_KO_CtpC	-0.154	-0.288
H37Rv_KO_CtpD	-0.562	0.055
H37Rv_KO_Rv1272	0.905	-1.053
H37Rv_KO_SugABC	-1.79	-0.819
H37Rv_KO_MbtN	1.088	-0.526
Trans05	1.116	-0.625
macrophage_unactivated	-0.019	0.095
IL1	1.109	0.0
Rapamycin	-0.227	-0.19
Tcell	0.538	0.935
GMCSF	-0.28	0.079
IFNab	-1.427	-0.333
IFNg	-0.388	-0.029
IFNg_GMCSF1	0.273	-0.072
Rv1432_day32	-0.33	1.288
Rv1565c_day32	0.03	0.158
secA2_input	0.189	0.769
delta_Rv3594	0.572	-0.971
delta_Rv3717	1.258	-0.799
delta_Rv3811	-0.574	-1.387
delta_Rv0954	-0.64	-1.0
PonA1	0.596	-0.336
EccD1_KO	-0.697	-0.697
EspI_KO	0.667	-0.371
PE35_KO	-0.7	-0.446
PPE68_KO	-0.678	-0.403
glycerol2	0.102	-0.661
lignocerate	-1.033	-0.621
oleate	1.134	-0.793
phosphatidylcholine	-0.689	-0.793
acetate	-0.557	-1.614
glucAc	-0.266	-0.741
Rv0950ko	0.959	0.724
Rv1096ko	-0.084	0.552
Rv3684ko	1.487	0.196
delta_otsA_trehalose	-0.686	0.411