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 Rv1615/-:

update plot	correlation	link to info on gene
Rv3525c/-	(cc=0.4581)	info on Rv3525c/-
Rv2274c/mazF8	(cc=0.4461)	info on Rv2274c/mazF8
Rv1048c/-	(cc=0.4253)	info on Rv1048c/-
Rv2585c/-	(cc=0.4206)	info on Rv2585c/-
Rv0923c/-	(cc=0.4176)	info on Rv0923c/-
Rv2269c/-	(cc=0.396)	info on Rv2269c/-
Rv0826/-	(cc=0.395)	info on Rv0826/-
Rv2061c/-	(cc=0.3931)	info on Rv2061c/-
Rv1528c/papA4	(cc=0.3769)	info on Rv1528c/papA4
Rv2811/-	(cc=0.3754)	info on Rv2811/-

Correlation of Rv1615/- with Rv2585c/-

Normalized LFCs for Rv1615/-:
(description and provenance of datasets)

	Rv1615/-	Rv2585c/-
Fe_supp_jason_reseq	-3.429	0.229
low_pH_jason_reseq	-1.571	-1.047
NO_jason_reseq	-0.732	-0.798
B6_jason_reseq	-0.432	0.492
MHCII_jason_reseq	-0.675	0.212
Isoniazid02	-1.809	0.028
Rifampicin4	1.224	0.615
Ethambutol3	-0.737	0.924
Meropenem3	-0.183	0.945
Vancomycin16	-0.146	0.127
Rv2680_day32	-0.463	0.151
H37Rv_KO_MarP	-1.29	-0.913
hypoxia_3wks	0.0	-0.514
hypoxia_6wks	-0.094	-0.505
glycerol	-0.41	-0.092
cholesterol	-0.745	0.846
AJ	0.123	0.519
Bibs02	1.048	0.616
Bibs02c	-0.452	0.358
BL6	-0.689	0.356
BL6a	-0.376	0.505
BXD01	0.395	0.008
BXD010	-0.392	0.812
BXD011	-0.929	0.672
BXD03	0.185	0.487
BXD04	1.351	0.17
BXD05	-0.122	0.746
BXD06	-0.051	0.481
BXD07	-0.712	0.367
BXD08	0.07	0.305
BXD09	-0.626	0.441
CAST	0.325	0.143
CCcont	-0.617	-0.558
DS01	-0.2	0.217
DS02	-0.603	0.109
DS04	0.557	0.617
DS0c	-0.036	-0.099
GP01	-1.394	0.3
GP02	-1.711	0.091
GP0c	-1.479	-0.276
NOD	0.69	0.628
NZO	0.301	0.298
PWK	0.997	1.131
H37Rv_KO_CtpC	-0.864	-1.125
H37Rv_KO_CtpD	-2.051	-0.715
H37Rv_KO_Rv1272	-0.103	-0.278
H37Rv_KO_SugABC	-1.767	0.296
H37Rv_KO_MbtN	0.555	0.583
Trans05	0.757	0.476
macrophage_unactivated	1.095	0.316
IL1	-0.326	-0.374
Rapamycin	-0.374	-0.246
Tcell	-0.248	-0.632
GMCSF	0.642	1.17
IFNab	-0.402	0.351
IFNg	-0.056	0.436
IFNg_GMCSF1	1.09	1.144
Rv1432_day32	1.197	1.643
Rv1565c_day32	-0.136	0.433
secA2_input	-0.7	-0.719
delta_Rv3594	0.0	0.805
delta_Rv3717	-0.112	0.75
delta_Rv3811	-0.192	0.516
delta_Rv0954	-0.238	0.185
PonA1	-0.763	0.369
EccD1_KO	-0.724	0.628
EspI_KO	0.476	0.408
PE35_KO	0.041	-0.327
PPE68_KO	0.253	0.067
glycerol2	-0.747	-0.342
lignocerate	-1.068	-0.704
oleate	0.739	0.312
phosphatidylcholine	-0.409	-0.668
acetate	-0.904	-0.432
glucAc	-1.654	-0.641
Rv0950ko	-0.787	0.576
Rv1096ko	-0.618	1.27
Rv3684ko	-0.495	1.238
delta_otsA_trehalose	-0.773	-0.21