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 Rv1365c/rsfA:

update plot	correlation	link to info on gene
Rv0885/-	(cc=0.5363)	info on Rv0885/-
Rv3525c/-	(cc=0.4917)	info on Rv3525c/-
Rv1507A/-	(cc=0.4834)	info on Rv1507A/-
Rv3116/moeB2	(cc=0.4777)	info on Rv3116/moeB2
Rv2061c/-	(cc=0.4642)	info on Rv2061c/-
Rv2922c/smc	(cc=0.4617)	info on Rv2922c/smc
Rv3361c/-	(cc=0.4594)	info on Rv3361c/-
Rv2196/qcrB	(cc=0.449)	info on Rv2196/qcrB
Rv1261c/-	(cc=0.4488)	info on Rv1261c/-
Rv2290/lppO	(cc=0.4464)	info on Rv2290/lppO

Correlation of Rv1365c/rsfA with Rv2196/qcrB

Normalized LFCs for Rv1365c/rsfA:
(description and provenance of datasets)

	Rv1365c/rsfA	Rv2196/qcrB
Fe_supp_jason_reseq	0.415	-0.182
low_pH_jason_reseq	-0.022	0.345
NO_jason_reseq	-1.57	-0.633
B6_jason_reseq	0.269	-0.267
MHCII_jason_reseq	-0.315	-0.236
Isoniazid02	-0.968	-0.201
Rifampicin4	0.623	0.341
Ethambutol3	-0.809	0.544
Meropenem3	-0.996	0.151
Vancomycin16	-0.422	0.0
Rv2680_day32	0.526	0.0
H37Rv_KO_MarP	0.474	-0.178
hypoxia_3wks	0.562	0.0
hypoxia_6wks	0.173	0.403
glycerol	0.492	0.0
cholesterol	0.559	0.0
AJ	-0.583	0.0
Bibs02	0.546	0.502
Bibs02c	2.099	0.0
BL6	1.781	0.0
BL6a	1.759	0.544
BXD01	0.977	0.64
BXD010	1.214	0.0
BXD011	1.783	1.63
BXD03	0.909	0.831
BXD04	1.551	0.83
BXD05	0.982	0.57
BXD06	1.132	1.485
BXD07	1.649	0.68
BXD08	1.453	1.527
BXD09	1.469	0.78
CAST	0.522	0.439
CCcont	0.434	0.285
DS01	0.944	0.0
DS02	1.705	0.0
DS04	2.689	0.194
DS0c	0.211	0.0
GP01	-1.344	0.099
GP02	0.189	0.0
GP0c	-1.286	0.248
NOD	-0.291	0.0
NZO	-0.449	0.0
PWK	-0.651	0.0
H37Rv_KO_CtpC	0.672	0.0
H37Rv_KO_CtpD	-0.351	0.241
H37Rv_KO_Rv1272	-0.183	0.0
H37Rv_KO_SugABC	-1.06	0.189
H37Rv_KO_MbtN	0.164	0.196
Trans05	0.138	0.0
macrophage_unactivated	1.367	-0.316
IL1	0.786	0.537
Rapamycin	0.859	0.285
Tcell	0.459	0.857
GMCSF	0.987	0.9
IFNab	1.061	1.031
IFNg	0.588	0.911
IFNg_GMCSF1	1.832	0.292
Rv1432_day32	0.591	0.0
Rv1565c_day32	-0.286	0.0
secA2_input	0.221	0.87
delta_Rv3594	0.422	0.0
delta_Rv3717	0.581	0.405
delta_Rv3811	0.714	-0.187
delta_Rv0954	0.778	0.857
PonA1	0.779	0.133
EccD1_KO	0.842	0.414
EspI_KO	-0.297	0.687
PE35_KO	0.254	0.0
PPE68_KO	0.966	0.0
glycerol2	-1.079	-0.369
lignocerate	-1.143	-0.32
oleate	-0.034	-0.373
phosphatidylcholine	-0.57	-0.368
acetate	-1.44	0.0
glucAc	-1.679	-0.272
Rv0950ko	-2.035	0.0
Rv1096ko	-0.44	-0.727
Rv3684ko	-0.203	-0.789
delta_otsA_trehalose	0.0	0.439