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 Rv0877/-

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

	Rv1344/mbtL	Rv0877/-
Fe_supp_jason_reseq	0.928	-1.639
low_pH_jason_reseq	-0.475	0.724
NO_jason_reseq	1.814	3.305
B6_jason_reseq	1.5	1.22
MHCII_jason_reseq	0.15	-2.252
Isoniazid02	1.43	5.11
Rifampicin4	0.043	0.566
Ethambutol3	1.155	1.454
Meropenem3	0.822	1.624
Vancomycin16	0.846	-0.239
Rv2680_day32	1.582	1.68
H37Rv_KO_MarP	-0.303	-1.421
hypoxia_3wks	0.231	0.79
hypoxia_6wks	0.812	3.067
glycerol	-2.212	-1.593
cholesterol	-1.461	-1.617
AJ	0.24	-0.034
Bibs02	-0.191	-1.644
Bibs02c	-0.077	-1.478
BL6	-0.664	1.26
BL6a	0.036	0.319
BXD01	0.561	2.472
BXD010	0.943	1.577
BXD011	1.258	2.37
BXD03	0.465	0.932
BXD04	0.312	2.958
BXD05	1.026	1.299
BXD06	0.854	2.021
BXD07	1.218	1.091
BXD08	0.418	2.432
BXD09	0.635	1.504
CAST	-0.359	1.119
CCcont	-0.633	-0.938
DS01	1.203	-0.753
DS02	1.358	0.744
DS04	0.103	0.35
DS0c	0.361	-1.092
GP01	0.061	-0.222
GP02	0.061	1.341
GP0c	-0.499	0.237
NOD	-0.01	0.335
NZO	0.627	0.926
PWK	-0.412	2.786
H37Rv_KO_CtpC	-0.154	2.358
H37Rv_KO_CtpD	-0.562	0.373
H37Rv_KO_Rv1272	0.905	0.206
H37Rv_KO_SugABC	-1.79	0.442
H37Rv_KO_MbtN	1.088	1.093
Trans05	1.116	1.163
macrophage_unactivated	-0.019	-2.43
IL1	1.109	0.264
Rapamycin	-0.227	-1.108
Tcell	0.538	0.6
GMCSF	-0.28	-0.708
IFNab	-1.427	-1.784
IFNg	-0.388	0.345
IFNg_GMCSF1	0.273	0.085
Rv1432_day32	-0.33	1.226
Rv1565c_day32	0.03	-2.51
secA2_input	0.189	-0.238
delta_Rv3594	0.572	-1.713
delta_Rv3717	1.258	0.111
delta_Rv3811	-0.574	-2.104
delta_Rv0954	-0.64	-1.55
PonA1	0.596	-1.43
EccD1_KO	-0.697	-0.493
EspI_KO	0.667	-0.325
PE35_KO	-0.7	-1.642
PPE68_KO	-0.678	-1.417
glycerol2	0.102	0.035
lignocerate	-1.033	-0.843
oleate	1.134	2.003
phosphatidylcholine	-0.689	-0.332
acetate	-0.557	-0.14
glucAc	-0.266	-0.315
Rv0950ko	0.959	-0.018
Rv1096ko	-0.084	0.199
Rv3684ko	1.487	1.064
delta_otsA_trehalose	-0.686	-0.393