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 Rv2469c/-

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

	Rv2689c/-	Rv2469c/-
Fe_supp_jason_reseq	-1.129	-1.754
low_pH_jason_reseq	-1.012	-0.283
NO_jason_reseq	0.559	-0.483
B6_jason_reseq	-0.512	-0.496
MHCII_jason_reseq	-1.4	-1.579
Isoniazid02	-1.215	-0.556
Rifampicin4	0.357	-0.108
Ethambutol3	0.664	-0.049
Meropenem3	-0.204	-0.116
Vancomycin16	0.263	-0.191
Rv2680_day32	-0.353	0.118
H37Rv_KO_MarP	-0.014	0.08
hypoxia_3wks	-0.59	0.175
hypoxia_6wks	-0.019	0.284
glycerol	0.69	0.117
cholesterol	0.132	0.076
AJ	0.274	-0.538
Bibs02	-0.154	-0.171
Bibs02c	-0.811	-0.564
BL6	0.373	1.177
BL6a	-0.151	0.244
BXD01	0.596	-0.236
BXD010	0.713	-0.078
BXD011	1.253	0.949
BXD03	0.133	-0.144
BXD04	-0.028	0.464
BXD05	0.696	1.105
BXD06	0.54	0.507
BXD07	0.818	1.259
BXD08	0.427	0.031
BXD09	0.525	0.238
CAST	0.662	-0.14
CCcont	0.308	0.362
DS01	-0.335	-0.298
DS02	-0.049	-0.175
DS04	0.978	0.461
DS0c	-1.273	-0.025
GP01	0.084	0.253
GP02	0.453	0.019
GP0c	0.366	0.738
NOD	0.236	0.347
NZO	0.756	-0.11
PWK	1.159	-0.384
H37Rv_KO_CtpC	0.856	0.643
H37Rv_KO_CtpD	-0.387	0.234
H37Rv_KO_Rv1272	0.203	0.288
H37Rv_KO_SugABC	0.59	0.006
H37Rv_KO_MbtN	-0.164	1.011
Trans05	0.084	0.0
macrophage_unactivated	0.104	0.063
IL1	-0.021	0.626
Rapamycin	-0.424	0.506
Tcell	0.371	0.228
GMCSF	-0.726	-0.539
IFNab	-0.245	0.169
IFNg	-0.735	0.692
IFNg_GMCSF1	-0.669	-0.016
Rv1432_day32	0.188	-0.24
Rv1565c_day32	-0.194	-0.749
secA2_input	0.626	-0.095
delta_Rv3594	-0.171	0.618
delta_Rv3717	0.518	1.238
delta_Rv3811	0.018	0.402
delta_Rv0954	-0.229	1.735
PonA1	-0.774	-0.114
EccD1_KO	0.441	0.536
EspI_KO	0.844	0.901
PE35_KO	0.233	-0.563
PPE68_KO	0.464	0.205
glycerol2	0.593	0.775
lignocerate	0.928	0.097
oleate	0.373	1.021
phosphatidylcholine	0.723	0.658
acetate	1.082	0.527
glucAc	0.601	0.036
Rv0950ko	-0.16	1.125
Rv1096ko	-0.712	0.374
Rv3684ko	0.783	0.622
delta_otsA_trehalose	2.741	2.237