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 Rv3837c/-:

update plot	correlation	link to info on gene
Rv1683/-	(cc=0.5769)	info on Rv1683/-
Rv3842c/glpQ1	(cc=0.5717)	info on Rv3842c/glpQ1
Rv0502/-	(cc=0.5684)	info on Rv0502/-
Rv2185c/TB16.3	(cc=0.5672)	info on Rv2185c/TB16.3
Rv0930/pstA1	(cc=0.5614)	info on Rv0930/pstA1
Rv3821/-	(cc=0.5531)	info on Rv3821/-
Rv1925/fadD31	(cc=0.553)	info on Rv1925/fadD31
Rv0425c/ctpH	(cc=0.5502)	info on Rv0425c/ctpH
Rv0928/pstS3	(cc=0.5502)	info on Rv0928/pstS3
Rv0644c/mmaA2	(cc=0.5466)	info on Rv0644c/mmaA2

Correlation of Rv3837c/- with Rv1683/-

Normalized LFCs for Rv3837c/-:
(description and provenance of datasets)

	Rv3837c/-	Rv1683/-
Fe_supp_jason_reseq	-1.359	-1.097
low_pH_jason_reseq	-0.808	1.116
NO_jason_reseq	0.186	1.89
B6_jason_reseq	0.079	0.26
MHCII_jason_reseq	0.267	-0.897
Isoniazid02	-1.291	0.083
Rifampicin4	0.257	-0.872
Ethambutol3	0.063	-0.392
Meropenem3	-0.55	-0.568
Vancomycin16	0.22	-1.051
Rv2680_day32	1.501	-1.252
H37Rv_KO_MarP	0.73	0.395
hypoxia_3wks	-0.79	-1.388
hypoxia_6wks	-0.497	-0.593
glycerol	0.61	0.544
cholesterol	0.683	0.39
AJ	-0.077	-0.65
Bibs02	0.452	-0.371
Bibs02c	0.208	-0.424
BL6	1.461	1.713
BL6a	0.403	1.771
BXD01	1.452	2.314
BXD010	1.033	1.619
BXD011	1.281	2.729
BXD03	0.907	0.849
BXD04	0.916	0.933
BXD05	0.807	1.652
BXD06	1.259	1.954
BXD07	0.629	2.564
BXD08	1.014	2.081
BXD09	0.898	2.057
CAST	0.647	-0.646
CCcont	0.619	1.214
DS01	0.198	0.0
DS02	-0.024	-0.61
DS04	0.031	-0.883
DS0c	-0.519	0.129
GP01	-0.196	2.033
GP02	-0.127	0.263
GP0c	0.752	2.249
NOD	-0.233	-0.456
NZO	0.247	0.0
PWK	0.82	-0.257
H37Rv_KO_CtpC	-0.861	0.847
H37Rv_KO_CtpD	1.037	1.197
H37Rv_KO_Rv1272	1.052	1.297
H37Rv_KO_SugABC	0.783	-0.278
H37Rv_KO_MbtN	1.328	1.095
Trans05	1.742	3.916
macrophage_unactivated	0.088	0.139
IL1	-0.771	0.383
Rapamycin	-0.988	-0.436
Tcell	0.635	1.603
GMCSF	-0.686	-0.375
IFNab	-0.302	0.263
IFNg	-0.551	-0.123
IFNg_GMCSF1	0.584	-0.292
Rv1432_day32	1.567	0.924
Rv1565c_day32	0.275	0.509
secA2_input	0.65	0.445
delta_Rv3594	0.613	0.812
delta_Rv3717	1.258	3.05
delta_Rv3811	-0.228	0.693
delta_Rv0954	-0.637	-1.722
PonA1	-0.234	-0.488
EccD1_KO	-0.5	-1.779
EspI_KO	-0.462	-1.734
PE35_KO	-1.52	-0.875
PPE68_KO	-0.992	-1.328
glycerol2	0.933	0.705
lignocerate	-0.05	0.613
oleate	1.085	0.713
phosphatidylcholine	0.315	0.311
acetate	0.479	1.76
glucAc	-0.702	1.596
Rv0950ko	-0.341	-0.793
Rv1096ko	-0.157	0.142
Rv3684ko	-0.77	0.154
delta_otsA_trehalose	-0.372	0.147