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 Rv0506/mmpS2:

update plot	correlation	link to info on gene
Rv1677/dsbF	(cc=0.4474)	info on Rv1677/dsbF
Rv2436/rbsK	(cc=0.4288)	info on Rv2436/rbsK
Rv1810/-	(cc=0.4274)	info on Rv1810/-
Rv1507A/-	(cc=0.4166)	info on Rv1507A/-
Rv1521/fadD25	(cc=0.3756)	info on Rv1521/fadD25
Rv0307c/-	(cc=0.3722)	info on Rv0307c/-
Rv0713/-	(cc=0.3689)	info on Rv0713/-
Rv3200c/-	(cc=0.3658)	info on Rv3200c/-
Rv3486/-	(cc=0.3612)	info on Rv3486/-
Rv2957/-	(cc=0.3594)	info on Rv2957/-

Correlation of Rv0506/mmpS2 with Rv1810/-

Normalized LFCs for Rv0506/mmpS2:
(description and provenance of datasets)

	Rv0506/mmpS2	Rv1810/-
Fe_supp_jason_reseq	1.096	1.043
low_pH_jason_reseq	-0.432	-0.985
NO_jason_reseq	-0.213	-0.129
B6_jason_reseq	-0.1	0.323
MHCII_jason_reseq	0.77	-0.259
Isoniazid02	0.25	0.687
Rifampicin4	0.379	-0.138
Ethambutol3	0.116	-0.134
Meropenem3	0.073	-0.018
Vancomycin16	0.273	0.157
Rv2680_day32	1.231	-0.329
H37Rv_KO_MarP	0.59	0.186
hypoxia_3wks	1.659	0.726
hypoxia_6wks	1.274	1.113
glycerol	0.584	0.08
cholesterol	0.659	0.444
AJ	-0.218	-0.494
Bibs02	0.474	0.305
Bibs02c	1.015	1.07
BL6	-0.27	-0.06
BL6a	0.827	0.35
BXD01	0.6	0.237
BXD010	0.949	0.392
BXD011	0.207	0.401
BXD03	0.0	0.478
BXD04	0.744	0.056
BXD05	-0.275	0.303
BXD06	0.424	0.438
BXD07	0.107	0.238
BXD08	0.279	0.039
BXD09	0.146	0.571
CAST	0.355	-1.285
CCcont	0.348	0.166
DS01	-0.012	0.922
DS02	0.629	0.298
DS04	0.209	0.922
DS0c	0.999	0.182
GP01	-0.14	-0.053
GP02	0.347	1.283
GP0c	-0.17	0.117
NOD	0.145	-0.843
NZO	-0.812	-2.017
PWK	-0.323	-0.377
H37Rv_KO_CtpC	1.204	0.433
H37Rv_KO_CtpD	0.818	-0.54
H37Rv_KO_Rv1272	0.87	0.984
H37Rv_KO_SugABC	0.272	1.205
H37Rv_KO_MbtN	1.445	1.367
Trans05	0.695	1.513
macrophage_unactivated	0.723	0.126
IL1	0.018	0.119
Rapamycin	-0.175	-0.04
Tcell	0.534	0.613
GMCSF	0.953	0.51
IFNab	0.308	0.218
IFNg	0.655	0.053
IFNg_GMCSF1	-0.16	-0.041
Rv1432_day32	0.215	-0.169
Rv1565c_day32	0.908	-0.482
secA2_input	-0.593	0.019
delta_Rv3594	1.121	1.091
delta_Rv3717	-0.473	0.491
delta_Rv3811	0.805	0.486
delta_Rv0954	-0.213	0.673
PonA1	0.297	0.45
EccD1_KO	0.766	0.691
EspI_KO	0.97	-0.471
PE35_KO	0.508	0.432
PPE68_KO	0.474	0.384
glycerol2	0.198	1.037
lignocerate	0.346	0.676
oleate	0.614	-0.323
phosphatidylcholine	0.522	1.036
acetate	0.342	0.5
glucAc	0.111	-0.037
Rv0950ko	0.208	-0.745
Rv1096ko	-0.359	-1.155
Rv3684ko	-0.065	-1.621
delta_otsA_trehalose	0.162	-0.243