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 Rv1366/-

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

	Rv2689c/-	Rv1366/-
Fe_supp_jason_reseq	-1.129	-0.884
low_pH_jason_reseq	-1.012	-0.172
NO_jason_reseq	0.559	-0.294
B6_jason_reseq	-0.512	-0.871
MHCII_jason_reseq	-1.4	-0.267
Isoniazid02	-1.215	0.148
Rifampicin4	0.357	-0.376
Ethambutol3	0.664	0.269
Meropenem3	-0.204	0.237
Vancomycin16	0.263	0.172
Rv2680_day32	-0.353	-0.969
H37Rv_KO_MarP	-0.014	0.518
hypoxia_3wks	-0.59	-0.235
hypoxia_6wks	-0.019	-0.048
glycerol	0.69	-0.78
cholesterol	0.132	-0.44
AJ	0.274	0.134
Bibs02	-0.154	-0.823
Bibs02c	-0.811	0.656
BL6	0.373	0.376
BL6a	-0.151	0.397
BXD01	0.596	0.834
BXD010	0.713	1.115
BXD011	1.253	0.35
BXD03	0.133	-0.278
BXD04	-0.028	0.315
BXD05	0.696	0.231
BXD06	0.54	0.323
BXD07	0.818	0.476
BXD08	0.427	0.506
BXD09	0.525	-0.012
CAST	0.662	-0.142
CCcont	0.308	0.646
DS01	-0.335	0.301
DS02	-0.049	-0.254
DS04	0.978	0.263
DS0c	-1.273	0.525
GP01	0.084	1.227
GP02	0.453	1.296
GP0c	0.366	0.54
NOD	0.236	0.148
NZO	0.756	0.839
PWK	1.159	0.406
H37Rv_KO_CtpC	0.856	0.467
H37Rv_KO_CtpD	-0.387	-0.907
H37Rv_KO_Rv1272	0.203	0.341
H37Rv_KO_SugABC	0.59	0.902
H37Rv_KO_MbtN	-0.164	0.392
Trans05	0.084	0.557
macrophage_unactivated	0.104	0.107
IL1	-0.021	-0.739
Rapamycin	-0.424	-0.681
Tcell	0.371	0.694
GMCSF	-0.726	-1.117
IFNab	-0.245	-0.593
IFNg	-0.735	-1.384
IFNg_GMCSF1	-0.669	-1.628
Rv1432_day32	0.188	-0.55
Rv1565c_day32	-0.194	0.175
secA2_input	0.626	-0.188
delta_Rv3594	-0.171	-0.249
delta_Rv3717	0.518	0.371
delta_Rv3811	0.018	-0.665
delta_Rv0954	-0.229	0.813
PonA1	-0.774	0.726
EccD1_KO	0.441	-0.276
EspI_KO	0.844	0.262
PE35_KO	0.233	0.379
PPE68_KO	0.464	0.534
glycerol2	0.593	1.188
lignocerate	0.928	1.47
oleate	0.373	0.387
phosphatidylcholine	0.723	1.27
acetate	1.082	1.549
glucAc	0.601	1.226
Rv0950ko	-0.16	0.856
Rv1096ko	-0.712	0.32
Rv3684ko	0.783	0.534
delta_otsA_trehalose	2.741	1.077