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 Rv0458/-

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

	Rv1344/mbtL	Rv0458/-
Fe_supp_jason_reseq	0.928	-0.571
low_pH_jason_reseq	-0.475	-0.368
NO_jason_reseq	1.814	-0.26
B6_jason_reseq	1.5	-0.192
MHCII_jason_reseq	0.15	0.456
Isoniazid02	1.43	0.533
Rifampicin4	0.043	0.382
Ethambutol3	1.155	0.246
Meropenem3	0.822	1.113
Vancomycin16	0.846	0.353
Rv2680_day32	1.582	0.005
H37Rv_KO_MarP	-0.303	0.286
hypoxia_3wks	0.231	0.542
hypoxia_6wks	0.812	1.173
glycerol	-2.212	-1.732
cholesterol	-1.461	-0.313
AJ	0.24	0.197
Bibs02	-0.191	0.042
Bibs02c	-0.077	0.764
BL6	-0.664	-0.639
BL6a	0.036	0.749
BXD01	0.561	-0.037
BXD010	0.943	-0.086
BXD011	1.258	0.208
BXD03	0.465	0.049
BXD04	0.312	0.35
BXD05	1.026	0.136
BXD06	0.854	0.27
BXD07	1.218	-0.148
BXD08	0.418	0.289
BXD09	0.635	-0.053
CAST	-0.359	0.053
CCcont	-0.633	-0.314
DS01	1.203	0.329
DS02	1.358	0.561
DS04	0.103	-0.301
DS0c	0.361	0.826
GP01	0.061	-0.666
GP02	0.061	0.325
GP0c	-0.499	-0.266
NOD	-0.01	-0.537
NZO	0.627	-0.038
PWK	-0.412	0.027
H37Rv_KO_CtpC	-0.154	-0.093
H37Rv_KO_CtpD	-0.562	-0.519
H37Rv_KO_Rv1272	0.905	-0.088
H37Rv_KO_SugABC	-1.79	-0.248
H37Rv_KO_MbtN	1.088	0.205
Trans05	1.116	0.138
macrophage_unactivated	-0.019	-0.129
IL1	1.109	0.202
Rapamycin	-0.227	0.018
Tcell	0.538	0.15
GMCSF	-0.28	-0.285
IFNab	-1.427	-0.662
IFNg	-0.388	-0.425
IFNg_GMCSF1	0.273	0.126
Rv1432_day32	-0.33	0.665
Rv1565c_day32	0.03	-0.516
secA2_input	0.189	0.285
delta_Rv3594	0.572	-0.543
delta_Rv3717	1.258	0.135
delta_Rv3811	-0.574	-0.375
delta_Rv0954	-0.64	-0.384
PonA1	0.596	1.116
EccD1_KO	-0.697	0.204
EspI_KO	0.667	0.177
PE35_KO	-0.7	-1.0
PPE68_KO	-0.678	-0.608
glycerol2	0.102	1.655
lignocerate	-1.033	-1.05
oleate	1.134	1.313
phosphatidylcholine	-0.689	-0.493
acetate	-0.557	0.191
glucAc	-0.266	0.41
Rv0950ko	0.959	-0.286
Rv1096ko	-0.084	0.633
Rv3684ko	1.487	0.904
delta_otsA_trehalose	-0.686	0.888