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 Rv2689c/-:

update plot	correlation	link to info on gene
Rv1153c/omt	(cc=0.5619)	info on Rv1153c/omt
Rv0572c/-	(cc=0.5066)	info on Rv0572c/-
Rv2469c/-	(cc=0.5007)	info on Rv2469c/-
Rv2702/ppgK	(cc=0.4836)	info on Rv2702/ppgK
Rv2425c/-	(cc=0.4754)	info on Rv2425c/-
Rv3656c/-	(cc=0.4707)	info on Rv3656c/-
Rv1366/-	(cc=0.4691)	info on Rv1366/-
Rv3904c/esxE	(cc=0.468)	info on Rv3904c/esxE
Rv1924c/-	(cc=0.4579)	info on Rv1924c/-
Rv3421c/-	(cc=0.4539)	info on Rv3421c/-

Correlation of Rv2689c/- with Rv2425c/-

Normalized LFCs for Rv2689c/-:
(description and provenance of datasets)

	Rv2689c/-	Rv2425c/-
Fe_supp_jason_reseq	-1.129	-1.459
low_pH_jason_reseq	-1.012	-1.082
NO_jason_reseq	0.559	0.635
B6_jason_reseq	-0.512	-1.089
MHCII_jason_reseq	-1.4	-1.055
Isoniazid02	-1.215	-0.627
Rifampicin4	0.357	-0.393
Ethambutol3	0.664	-0.254
Meropenem3	-0.204	-0.195
Vancomycin16	0.263	0.064
Rv2680_day32	-0.353	-0.812
H37Rv_KO_MarP	-0.014	0.244
hypoxia_3wks	-0.59	-0.327
hypoxia_6wks	-0.019	-0.148
glycerol	0.69	0.399
cholesterol	0.132	0.233
AJ	0.274	0.955
Bibs02	-0.154	0.649
Bibs02c	-0.811	0.235
BL6	0.373	1.008
BL6a	-0.151	0.501
BXD01	0.596	0.323
BXD010	0.713	0.605
BXD011	1.253	0.371
BXD03	0.133	-0.009
BXD04	-0.028	-0.104
BXD05	0.696	0.21
BXD06	0.54	0.201
BXD07	0.818	0.729
BXD08	0.427	0.009
BXD09	0.525	0.076
CAST	0.662	0.594
CCcont	0.308	0.341
DS01	-0.335	-0.296
DS02	-0.049	-0.463
DS04	0.978	0.173
DS0c	-1.273	-0.671
GP01	0.084	0.149
GP02	0.453	-0.33
GP0c	0.366	0.474
NOD	0.236	-0.189
NZO	0.756	0.465
PWK	1.159	0.756
H37Rv_KO_CtpC	0.856	1.982
H37Rv_KO_CtpD	-0.387	0.997
H37Rv_KO_Rv1272	0.203	0.364
H37Rv_KO_SugABC	0.59	0.374
H37Rv_KO_MbtN	-0.164	1.325
Trans05	0.084	0.99
macrophage_unactivated	0.104	-0.464
IL1	-0.021	-0.344
Rapamycin	-0.424	-0.175
Tcell	0.371	-0.137
GMCSF	-0.726	0.09
IFNab	-0.245	-0.683
IFNg	-0.735	-0.874
IFNg_GMCSF1	-0.669	-0.11
Rv1432_day32	0.188	0.227
Rv1565c_day32	-0.194	-0.058
secA2_input	0.626	0.357
delta_Rv3594	-0.171	0.474
delta_Rv3717	0.518	0.659
delta_Rv3811	0.018	0.202
delta_Rv0954	-0.229	0.401
PonA1	-0.774	0.671
EccD1_KO	0.441	0.806
EspI_KO	0.844	0.724
PE35_KO	0.233	0.846
PPE68_KO	0.464	0.298
glycerol2	0.593	0.471
lignocerate	0.928	1.148
oleate	0.373	-0.187
phosphatidylcholine	0.723	1.036
acetate	1.082	1.325
glucAc	0.601	0.61
Rv0950ko	-0.16	0.268
Rv1096ko	-0.712	-0.157
Rv3684ko	0.783	0.033
delta_otsA_trehalose	2.741	-0.544