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 Rv2702/ppgK

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

	Rv2689c/-	Rv2702/ppgK
Fe_supp_jason_reseq	-1.129	-0.502
low_pH_jason_reseq	-1.012	0.637
NO_jason_reseq	0.559	3.1
B6_jason_reseq	-0.512	-0.73
MHCII_jason_reseq	-1.4	-1.687
Isoniazid02	-1.215	-2.714
Rifampicin4	0.357	1.153
Ethambutol3	0.664	1.772
Meropenem3	-0.204	-2.058
Vancomycin16	0.263	2.908
Rv2680_day32	-0.353	-0.554
H37Rv_KO_MarP	-0.014	-1.088
hypoxia_3wks	-0.59	-0.654
hypoxia_6wks	-0.019	-1.698
glycerol	0.69	1.309
cholesterol	0.132	-0.443
AJ	0.274	0.378
Bibs02	-0.154	-1.778
Bibs02c	-0.811	-1.813
BL6	0.373	0.75
BL6a	-0.151	-0.644
BXD01	0.596	1.508
BXD010	0.713	-0.019
BXD011	1.253	3.76
BXD03	0.133	1.667
BXD04	-0.028	0.589
BXD05	0.696	0.761
BXD06	0.54	2.729
BXD07	0.818	1.033
BXD08	0.427	2.021
BXD09	0.525	0.561
CAST	0.662	1.6
CCcont	0.308	-0.022
DS01	-0.335	-2.387
DS02	-0.049	-0.345
DS04	0.978	-0.375
DS0c	-1.273	-1.54
GP01	0.084	-0.014
GP02	0.453	0.723
GP0c	0.366	1.87
NOD	0.236	1.474
NZO	0.756	1.196
PWK	1.159	3.79
H37Rv_KO_CtpC	0.856	-0.177
H37Rv_KO_CtpD	-0.387	-1.231
H37Rv_KO_Rv1272	0.203	-0.176
H37Rv_KO_SugABC	0.59	1.265
H37Rv_KO_MbtN	-0.164	2.011
Trans05	0.084	0.468
macrophage_unactivated	0.104	1.061
IL1	-0.021	-1.397
Rapamycin	-0.424	-1.062
Tcell	0.371	0.225
GMCSF	-0.726	0.415
IFNab	-0.245	2.222
IFNg	-0.735	-0.73
IFNg_GMCSF1	-0.669	0.182
Rv1432_day32	0.188	2.767
Rv1565c_day32	-0.194	-1.643
secA2_input	0.626	-0.438
delta_Rv3594	-0.171	-0.151
delta_Rv3717	0.518	1.612
delta_Rv3811	0.018	-0.058
delta_Rv0954	-0.229	-2.476
PonA1	-0.774	-0.862
EccD1_KO	0.441	0.895
EspI_KO	0.844	1.643
PE35_KO	0.233	0.23
PPE68_KO	0.464	0.253
glycerol2	0.593	2.413
lignocerate	0.928	0.462
oleate	0.373	1.613
phosphatidylcholine	0.723	0.368
acetate	1.082	0.0
glucAc	0.601	0.0
Rv0950ko	-0.16	0.905
Rv1096ko	-0.712	0.905
Rv3684ko	0.783	0.485
delta_otsA_trehalose	2.741	-0.56