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 Rv2866/relG:

update plot	correlation	link to info on gene
Rv3122/-	(cc=0.4651)	info on Rv3122/-
Rv2129c/-	(cc=0.4422)	info on Rv2129c/-
Rv1196/PPE18	(cc=0.4281)	info on Rv1196/PPE18
Rv1361c/PPE19	(cc=0.4252)	info on Rv1361c/PPE19
Rv0021c/-	(cc=0.4242)	info on Rv0021c/-
Rv3860/-	(cc=0.4222)	info on Rv3860/-
Rv3509c/ilvX	(cc=0.4176)	info on Rv3509c/ilvX
Rv0179c/lprO	(cc=0.4105)	info on Rv0179c/lprO
Rv3755c/-	(cc=0.4102)	info on Rv3755c/-
Rv1528c/papA4	(cc=0.4084)	info on Rv1528c/papA4

Correlation of Rv2866/relG with Rv1196/PPE18

Normalized LFCs for Rv2866/relG:
(description and provenance of datasets)

	Rv2866/relG	Rv1196/PPE18
Fe_supp_jason_reseq	-0.748	-0.06
low_pH_jason_reseq	-0.848	-1.091
NO_jason_reseq	-0.362	-0.914
B6_jason_reseq	-0.335	-1.217
MHCII_jason_reseq	0.341	0.228
Isoniazid02	2.271	2.462
Rifampicin4	-0.536	0.842
Ethambutol3	1.063	1.445
Meropenem3	0.091	-0.121
Vancomycin16	0.427	0.531
Rv2680_day32	-0.597	-1.276
H37Rv_KO_MarP	-0.371	-0.934
hypoxia_3wks	0.124	0.626
hypoxia_6wks	0.631	0.875
glycerol	0.456	0.828
cholesterol	0.348	0.379
AJ	1.415	1.657
Bibs02	1.06	0.685
Bibs02c	0.294	1.155
BL6	0.463	1.282
BL6a	0.379	1.591
BXD01	-0.472	0.97
BXD010	0.245	0.644
BXD011	0.615	1.367
BXD03	0.913	1.557
BXD04	0.463	0.999
BXD05	0.196	1.494
BXD06	-0.033	0.919
BXD07	0.542	0.923
BXD08	0.187	1.004
BXD09	1.001	1.004
CAST	-0.247	0.863
CCcont	0.33	1.275
DS01	-0.072	1.246
DS02	-1.022	0.892
DS04	1.112	1.684
DS0c	-0.662	1.171
GP01	-1.923	0.765
GP02	-0.316	0.418
GP0c	-0.184	0.506
NOD	-1.3	0.133
NZO	0.048	0.761
PWK	0.87	0.999
H37Rv_KO_CtpC	-0.197	-0.175
H37Rv_KO_CtpD	1.612	1.298
H37Rv_KO_Rv1272	0.808	1.113
H37Rv_KO_SugABC	1.511	1.499
H37Rv_KO_MbtN	1.31	1.065
Trans05	0.543	0.993
macrophage_unactivated	-0.341	0.246
IL1	0.273	-1.16
Rapamycin	-0.598	-0.35
Tcell	-0.29	-1.0
GMCSF	-0.359	-0.742
IFNab	0.23	1.62
IFNg	-0.441	-1.868
IFNg_GMCSF1	-0.167	-0.308
Rv1432_day32	0.055	-0.271
Rv1565c_day32	-1.245	-0.101
secA2_input	-0.207	-0.312
delta_Rv3594	-0.023	0.569
delta_Rv3717	-0.194	0.865
delta_Rv3811	-0.266	0.758
delta_Rv0954	0.18	0.339
PonA1	1.39	-0.369
EccD1_KO	-0.674	0.122
EspI_KO	-0.742	1.32
PE35_KO	-0.925	0.72
PPE68_KO	-0.979	0.157
glycerol2	-0.528	1.103
lignocerate	-0.824	0.742
oleate	-0.123	-0.425
phosphatidylcholine	-0.265	1.064
acetate	-0.545	-0.045
glucAc	-0.318	0.176
Rv0950ko	1.481	-0.057
Rv1096ko	0.679	-0.03
Rv3684ko	-0.21	-0.226
delta_otsA_trehalose	-0.052	1.263