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 Rv0076c/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.5092)	info on Rv2430c/PPE41
Rv0805/-	(cc=0.4827)	info on Rv0805/-
Rv2501c/accA1	(cc=0.4776)	info on Rv2501c/accA1
Rv0762c/-	(cc=0.4763)	info on Rv0762c/-
Rv1169c/lipX	(cc=0.4717)	info on Rv1169c/lipX
Rv3278c/-	(cc=0.4694)	info on Rv3278c/-
Rv0371c/-	(cc=0.4611)	info on Rv0371c/-
Rv3528c/-	(cc=0.461)	info on Rv3528c/-
Rv1051c/-	(cc=0.4598)	info on Rv1051c/-
Rv0742/PE_PGRS8	(cc=0.458)	info on Rv0742/PE_PGRS8

Correlation of Rv0076c/- with Rv0762c/-

Normalized LFCs for Rv0076c/-:
(description and provenance of datasets)

	Rv0076c/-	Rv0762c/-
Fe_supp_jason_reseq	-0.559	0.283
low_pH_jason_reseq	0.234	-0.714
NO_jason_reseq	-2.184	-0.095
B6_jason_reseq	-0.605	-0.387
MHCII_jason_reseq	-0.346	-0.012
Isoniazid02	-1.0	0.049
Rifampicin4	0.799	0.328
Ethambutol3	-0.209	0.73
Meropenem3	-0.615	0.9
Vancomycin16	-0.106	0.769
Rv2680_day32	-0.077	0.562
H37Rv_KO_MarP	0.817	1.232
hypoxia_3wks	-0.064	-0.75
hypoxia_6wks	-0.524	-0.476
glycerol	-0.471	-0.704
cholesterol	0.395	-0.595
AJ	0.091	1.01
Bibs02	0.481	0.502
Bibs02c	-0.073	0.141
BL6	0.653	1.144
BL6a	0.64	1.016
BXD01	0.973	0.417
BXD010	2.436	1.631
BXD011	0.814	0.889
BXD03	1.385	0.542
BXD04	0.041	0.679
BXD05	0.68	1.076
BXD06	1.004	0.733
BXD07	0.979	1.174
BXD08	0.929	0.674
BXD09	1.404	0.923
CAST	0.963	0.192
CCcont	1.571	0.829
DS01	0.811	0.648
DS02	1.741	0.074
DS04	3.287	0.777
DS0c	0.503	0.919
GP01	-0.396	0.563
GP02	0.875	0.25
GP0c	1.028	0.365
NOD	0.753	0.0
NZO	1.123	1.41
PWK	0.61	-0.142
H37Rv_KO_CtpC	1.058	0.213
H37Rv_KO_CtpD	-1.286	-1.328
H37Rv_KO_Rv1272	1.515	-0.284
H37Rv_KO_SugABC	-0.183	0.877
H37Rv_KO_MbtN	0.643	0.127
Trans05	1.004	0.745
macrophage_unactivated	2.153	2.137
IL1	-0.077	-0.314
Rapamycin	0.012	0.043
Tcell	0.603	1.877
GMCSF	-0.457	0.209
IFNab	0.012	0.021
IFNg	1.211	0.756
IFNg_GMCSF1	0.261	-0.173
Rv1432_day32	0.691	0.364
Rv1565c_day32	-1.194	-0.019
secA2_input	0.773	-1.099
delta_Rv3594	-1.227	0.486
delta_Rv3717	-1.034	0.193
delta_Rv3811	-1.478	0.031
delta_Rv0954	-0.972	0.094
PonA1	-0.891	-0.24
EccD1_KO	-0.322	-0.382
EspI_KO	-0.876	-0.479
PE35_KO	-0.12	-0.082
PPE68_KO	-0.611	-0.214
glycerol2	-0.008	0.433
lignocerate	0.253	0.762
oleate	-0.021	-0.312
phosphatidylcholine	-0.091	0.604
acetate	-0.199	1.007
glucAc	2.151	1.034
Rv0950ko	0.154	-0.914
Rv1096ko	-0.594	-0.338
Rv3684ko	0.2	-0.396
delta_otsA_trehalose	0.183	0.118