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 Rv0226c/-:

update plot	correlation	link to info on gene
Rv0278c/PE_PGRS3	(cc=0.5644)	info on Rv0278c/PE_PGRS3
Rv1676/-	(cc=0.5603)	info on Rv1676/-
Rv1087/PE_PGRS21	(cc=0.5476)	info on Rv1087/PE_PGRS21
Rv2802c/-	(cc=0.5458)	info on Rv2802c/-
Rv2821c/-	(cc=0.5377)	info on Rv2821c/-
Rv0649/fabD2	(cc=0.5245)	info on Rv0649/fabD2
Rv2402/-	(cc=0.5092)	info on Rv2402/-
Rv1718/-	(cc=0.5072)	info on Rv1718/-
Rv2638/-	(cc=0.5052)	info on Rv2638/-
Rv3705A/-	(cc=0.5046)	info on Rv3705A/-

Correlation of Rv0226c/- with Rv2821c/-

Normalized LFCs for Rv0226c/-:
(description and provenance of datasets)

	Rv0226c/-	Rv2821c/-
Fe_supp_jason_reseq	0.0	0.314
low_pH_jason_reseq	-1.103	0.296
NO_jason_reseq	-0.541	-0.273
B6_jason_reseq	-0.111	0.588
MHCII_jason_reseq	0.296	-1.292
Isoniazid02	0.383	-0.194
Rifampicin4	0.712	0.523
Ethambutol3	0.085	-0.485
Meropenem3	0.581	1.93
Vancomycin16	0.536	0.244
Rv2680_day32	-0.789	1.795
H37Rv_KO_MarP	-0.299	-0.076
hypoxia_3wks	-0.885	-0.778
hypoxia_6wks	-0.637	-0.441
glycerol	1.379	-0.064
cholesterol	0.614	-0.063
AJ	-0.405	0.277
Bibs02	-0.234	-0.314
Bibs02c	0.587	0.15
BL6	0.097	0.535
BL6a	0.555	0.466
BXD01	-0.358	0.371
BXD010	0.236	-0.269
BXD011	-0.418	-0.098
BXD03	-0.686	0.772
BXD04	0.384	0.87
BXD05	0.0	0.575
BXD06	-0.438	0.055
BXD07	-0.454	0.112
BXD08	-0.963	0.244
BXD09	-0.713	-0.14
CAST	-0.402	0.619
CCcont	0.372	0.852
DS01	-0.098	0.098
DS02	0.61	0.176
DS04	0.973	0.304
DS0c	0.8	0.473
GP01	0.654	0.622
GP02	0.727	1.579
GP0c	1.091	0.471
NOD	-0.737	0.093
NZO	0.79	0.162
PWK	-0.081	0.462
H37Rv_KO_CtpC	0.599	0.761
H37Rv_KO_CtpD	-0.348	0.21
H37Rv_KO_Rv1272	-0.181	1.23
H37Rv_KO_SugABC	0.446	0.697
H37Rv_KO_MbtN	-0.832	-0.487
Trans05	-0.109	0.883
macrophage_unactivated	0.0	0.505
IL1	-0.199	-0.831
Rapamycin	-1.409	-0.47
Tcell	-0.691	0.117
GMCSF	-0.982	-1.022
IFNab	-1.672	-1.572
IFNg	-1.743	-1.253
IFNg_GMCSF1	-1.738	-0.525
Rv1432_day32	0.0	-0.261
Rv1565c_day32	-0.52	-0.389
secA2_input	-0.611	-0.056
delta_Rv3594	-0.961	0.431
delta_Rv3717	-0.228	0.081
delta_Rv3811	0.238	0.757
delta_Rv0954	-0.729	0.049
PonA1	-0.154	-0.504
EccD1_KO	0.306	0.75
EspI_KO	-0.918	-0.445
PE35_KO	1.105	0.508
PPE68_KO	0.841	0.192
glycerol2	0.618	1.24
lignocerate	1.453	1.789
oleate	-0.493	-0.238
phosphatidylcholine	0.913	1.263
acetate	1.084	1.829
glucAc	1.186	1.276
Rv0950ko	-0.6	0.256
Rv1096ko	0.139	-0.368
Rv3684ko	-0.154	-0.835
delta_otsA_trehalose	0.0	0.535