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 Rv1115/-

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

	Rv1344/mbtL	Rv1115/-
Fe_supp_jason_reseq	0.928	0.418
low_pH_jason_reseq	-0.475	0.11
NO_jason_reseq	1.814	0.646
B6_jason_reseq	1.5	0.22
MHCII_jason_reseq	0.15	1.118
Isoniazid02	1.43	0.776
Rifampicin4	0.043	0.858
Ethambutol3	1.155	0.638
Meropenem3	0.822	0.91
Vancomycin16	0.846	0.785
Rv2680_day32	1.582	-0.132
H37Rv_KO_MarP	-0.303	0.247
hypoxia_3wks	0.231	0.55
hypoxia_6wks	0.812	0.43
glycerol	-2.212	-0.913
cholesterol	-1.461	-1.299
AJ	0.24	-0.235
Bibs02	-0.191	-0.408
Bibs02c	-0.077	0.762
BL6	-0.664	-1.554
BL6a	0.036	0.317
BXD01	0.561	0.053
BXD010	0.943	0.035
BXD011	1.258	-0.328
BXD03	0.465	0.248
BXD04	0.312	0.439
BXD05	1.026	-0.744
BXD06	0.854	0.149
BXD07	1.218	-0.029
BXD08	0.418	-0.518
BXD09	0.635	0.157
CAST	-0.359	-0.113
CCcont	-0.633	-1.155
DS01	1.203	0.406
DS02	1.358	0.03
DS04	0.103	-0.125
DS0c	0.361	-0.339
GP01	0.061	0.626
GP02	0.061	-0.733
GP0c	-0.499	-0.335
NOD	-0.01	-0.063
NZO	0.627	-0.172
PWK	-0.412	-0.014
H37Rv_KO_CtpC	-0.154	-0.116
H37Rv_KO_CtpD	-0.562	0.077
H37Rv_KO_Rv1272	0.905	0.501
H37Rv_KO_SugABC	-1.79	-0.71
H37Rv_KO_MbtN	1.088	1.778
Trans05	1.116	0.464
macrophage_unactivated	-0.019	-0.928
IL1	1.109	-0.282
Rapamycin	-0.227	-0.064
Tcell	0.538	-0.137
GMCSF	-0.28	-0.193
IFNab	-1.427	-1.246
IFNg	-0.388	-0.283
IFNg_GMCSF1	0.273	-0.163
Rv1432_day32	-0.33	0.177
Rv1565c_day32	0.03	0.385
secA2_input	0.189	-0.229
delta_Rv3594	0.572	0.624
delta_Rv3717	1.258	0.357
delta_Rv3811	-0.574	-0.065
delta_Rv0954	-0.64	-0.457
PonA1	0.596	-0.12
EccD1_KO	-0.697	0.559
EspI_KO	0.667	0.767
PE35_KO	-0.7	0.461
PPE68_KO	-0.678	0.829
glycerol2	0.102	-0.156
lignocerate	-1.033	-0.192
oleate	1.134	0.296
phosphatidylcholine	-0.689	0.116
acetate	-0.557	-0.743
glucAc	-0.266	-0.605
Rv0950ko	0.959	-0.657
Rv1096ko	-0.084	-0.724
Rv3684ko	1.487	-0.825
delta_otsA_trehalose	-0.686	-1.084