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 Rv3509c/ilvX

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

	Rv2866/relG	Rv3509c/ilvX
Fe_supp_jason_reseq	-0.748	-0.081
low_pH_jason_reseq	-0.848	-0.375
NO_jason_reseq	-0.362	-0.257
B6_jason_reseq	-0.335	0.367
MHCII_jason_reseq	0.341	0.362
Isoniazid02	2.271	1.147
Rifampicin4	-0.536	0.55
Ethambutol3	1.063	0.899
Meropenem3	0.091	0.328
Vancomycin16	0.427	0.727
Rv2680_day32	-0.597	-0.207
H37Rv_KO_MarP	-0.371	0.302
hypoxia_3wks	0.124	-0.104
hypoxia_6wks	0.631	-0.355
glycerol	0.456	0.699
cholesterol	0.348	0.869
AJ	1.415	0.282
Bibs02	1.06	0.34
Bibs02c	0.294	0.45
BL6	0.463	0.502
BL6a	0.379	0.458
BXD01	-0.472	0.516
BXD010	0.245	0.03
BXD011	0.615	0.68
BXD03	0.913	0.047
BXD04	0.463	0.408
BXD05	0.196	-0.064
BXD06	-0.033	0.39
BXD07	0.542	0.174
BXD08	0.187	-0.011
BXD09	1.001	0.126
CAST	-0.247	0.207
CCcont	0.33	-0.281
DS01	-0.072	0.409
DS02	-1.022	0.28
DS04	1.112	0.835
DS0c	-0.662	0.594
GP01	-1.923	-0.119
GP02	-0.316	-0.02
GP0c	-0.184	-0.314
NOD	-1.3	0.714
NZO	0.048	-0.048
PWK	0.87	0.415
H37Rv_KO_CtpC	-0.197	-0.006
H37Rv_KO_CtpD	1.612	0.044
H37Rv_KO_Rv1272	0.808	0.167
H37Rv_KO_SugABC	1.511	0.471
H37Rv_KO_MbtN	1.31	0.257
Trans05	0.543	0.094
macrophage_unactivated	-0.341	-0.732
IL1	0.273	-0.602
Rapamycin	-0.598	-0.868
Tcell	-0.29	-0.459
GMCSF	-0.359	-0.428
IFNab	0.23	-0.856
IFNg	-0.441	-0.877
IFNg_GMCSF1	-0.167	0.226
Rv1432_day32	0.055	0.756
Rv1565c_day32	-1.245	0.175
secA2_input	-0.207	-0.189
delta_Rv3594	-0.023	0.783
delta_Rv3717	-0.194	0.039
delta_Rv3811	-0.266	0.651
delta_Rv0954	0.18	0.915
PonA1	1.39	0.743
EccD1_KO	-0.674	0.072
EspI_KO	-0.742	-0.125
PE35_KO	-0.925	-0.064
PPE68_KO	-0.979	-0.384
glycerol2	-0.528	-0.174
lignocerate	-0.824	-0.358
oleate	-0.123	-0.33
phosphatidylcholine	-0.265	-0.209
acetate	-0.545	-0.849
glucAc	-0.318	-0.171
Rv0950ko	1.481	0.612
Rv1096ko	0.679	0.953
Rv3684ko	-0.21	0.4
delta_otsA_trehalose	-0.052	-0.209