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 Rv1105/-

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

	Rv1344/mbtL	Rv1105/-
Fe_supp_jason_reseq	0.928	-0.368
low_pH_jason_reseq	-0.475	-0.644
NO_jason_reseq	1.814	0.21
B6_jason_reseq	1.5	0.503
MHCII_jason_reseq	0.15	0.521
Isoniazid02	1.43	1.675
Rifampicin4	0.043	-0.238
Ethambutol3	1.155	2.927
Meropenem3	0.822	0.086
Vancomycin16	0.846	0.342
Rv2680_day32	1.582	0.789
H37Rv_KO_MarP	-0.303	-0.332
hypoxia_3wks	0.231	1.739
hypoxia_6wks	0.812	1.693
glycerol	-2.212	-0.284
cholesterol	-1.461	-0.296
AJ	0.24	0.239
Bibs02	-0.191	0.78
Bibs02c	-0.077	0.505
BL6	-0.664	0.725
BL6a	0.036	0.834
BXD01	0.561	1.447
BXD010	0.943	0.759
BXD011	1.258	1.272
BXD03	0.465	0.604
BXD04	0.312	1.217
BXD05	1.026	0.944
BXD06	0.854	1.086
BXD07	1.218	0.992
BXD08	0.418	0.646
BXD09	0.635	0.869
CAST	-0.359	0.053
CCcont	-0.633	0.322
DS01	1.203	1.056
DS02	1.358	0.066
DS04	0.103	1.66
DS0c	0.361	0.762
GP01	0.061	-0.072
GP02	0.061	0.074
GP0c	-0.499	0.214
NOD	-0.01	0.675
NZO	0.627	0.061
PWK	-0.412	1.047
H37Rv_KO_CtpC	-0.154	0.013
H37Rv_KO_CtpD	-0.562	-0.039
H37Rv_KO_Rv1272	0.905	0.214
H37Rv_KO_SugABC	-1.79	-0.822
H37Rv_KO_MbtN	1.088	0.279
Trans05	1.116	0.847
macrophage_unactivated	-0.019	-0.265
IL1	1.109	-0.605
Rapamycin	-0.227	-0.555
Tcell	0.538	0.701
GMCSF	-0.28	-1.344
IFNab	-1.427	-1.339
IFNg	-0.388	-0.265
IFNg_GMCSF1	0.273	-1.568
Rv1432_day32	-0.33	-0.541
Rv1565c_day32	0.03	-0.981
secA2_input	0.189	-0.947
delta_Rv3594	0.572	-0.281
delta_Rv3717	1.258	-0.721
delta_Rv3811	-0.574	0.051
delta_Rv0954	-0.64	0.751
PonA1	0.596	-0.807
EccD1_KO	-0.697	0.707
EspI_KO	0.667	0.516
PE35_KO	-0.7	0.219
PPE68_KO	-0.678	0.47
glycerol2	0.102	0.394
lignocerate	-1.033	-0.123
oleate	1.134	0.316
phosphatidylcholine	-0.689	0.27
acetate	-0.557	-0.462
glucAc	-0.266	-0.718
Rv0950ko	0.959	0.929
Rv1096ko	-0.084	0.28
Rv3684ko	1.487	1.045
delta_otsA_trehalose	-0.686	-1.875