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 Rv1153c/omt

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

	Rv2689c/-	Rv1153c/omt
Fe_supp_jason_reseq	-1.129	-1.021
low_pH_jason_reseq	-1.012	-0.504
NO_jason_reseq	0.559	0.158
B6_jason_reseq	-0.512	-0.436
MHCII_jason_reseq	-1.4	-0.542
Isoniazid02	-1.215	-0.739
Rifampicin4	0.357	0.154
Ethambutol3	0.664	-0.81
Meropenem3	-0.204	-0.902
Vancomycin16	0.263	-0.462
Rv2680_day32	-0.353	0.007
H37Rv_KO_MarP	-0.014	0.051
hypoxia_3wks	-0.59	-0.223
hypoxia_6wks	-0.019	-0.196
glycerol	0.69	-0.08
cholesterol	0.132	-0.343
AJ	0.274	0.012
Bibs02	-0.154	0.277
Bibs02c	-0.811	-0.382
BL6	0.373	-0.823
BL6a	-0.151	-0.1
BXD01	0.596	-0.093
BXD010	0.713	0.092
BXD011	1.253	0.025
BXD03	0.133	0.256
BXD04	-0.028	0.303
BXD05	0.696	0.249
BXD06	0.54	0.202
BXD07	0.818	0.345
BXD08	0.427	0.207
BXD09	0.525	0.132
CAST	0.662	-0.023
CCcont	0.308	-0.468
DS01	-0.335	-0.39
DS02	-0.049	-0.167
DS04	0.978	0.121
DS0c	-1.273	0.223
GP01	0.084	-0.265
GP02	0.453	-0.459
GP0c	0.366	-0.707
NOD	0.236	0.291
NZO	0.756	0.497
PWK	1.159	0.489
H37Rv_KO_CtpC	0.856	0.124
H37Rv_KO_CtpD	-0.387	0.018
H37Rv_KO_Rv1272	0.203	-0.17
H37Rv_KO_SugABC	0.59	0.137
H37Rv_KO_MbtN	-0.164	-0.47
Trans05	0.084	-0.179
macrophage_unactivated	0.104	-0.382
IL1	-0.021	-0.074
Rapamycin	-0.424	-0.371
Tcell	0.371	-0.121
GMCSF	-0.726	-0.459
IFNab	-0.245	-0.094
IFNg	-0.735	-0.166
IFNg_GMCSF1	-0.669	0.038
Rv1432_day32	0.188	0.13
Rv1565c_day32	-0.194	0.043
secA2_input	0.626	0.255
delta_Rv3594	-0.171	-0.274
delta_Rv3717	0.518	-0.701
delta_Rv3811	0.018	-0.784
delta_Rv0954	-0.229	-0.788
PonA1	-0.774	-0.679
EccD1_KO	0.441	0.74
EspI_KO	0.844	0.545
PE35_KO	0.233	0.963
PPE68_KO	0.464	0.928
glycerol2	0.593	0.345
lignocerate	0.928	0.493
oleate	0.373	0.096
phosphatidylcholine	0.723	0.7
acetate	1.082	0.191
glucAc	0.601	0.051
Rv0950ko	-0.16	-0.392
Rv1096ko	-0.712	0.335
Rv3684ko	0.783	0.282
delta_otsA_trehalose	2.741	1.595