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 Rv0042c/-:

update plot	correlation	link to info on gene
Rv2147c/-	(cc=0.5768)	info on Rv2147c/-
Rv2219/-	(cc=0.5704)	info on Rv2219/-
Rv1005c/pabB	(cc=0.5581)	info on Rv1005c/pabB
Rv0945/-	(cc=0.555)	info on Rv0945/-
Rv0698/-	(cc=0.5519)	info on Rv0698/-
Rv1987/-	(cc=0.547)	info on Rv1987/-
Rv0312/-	(cc=0.5331)	info on Rv0312/-
Rv2607/pdxH	(cc=0.5271)	info on Rv2607/pdxH
Rv1062/-	(cc=0.5185)	info on Rv1062/-
Rv0109/PE_PGRS1	(cc=0.5114)	info on Rv0109/PE_PGRS1

Correlation of Rv0042c/- with Rv1987/-

Normalized LFCs for Rv0042c/-:
(description and provenance of datasets)

	Rv0042c/-	Rv1987/-
Fe_supp_jason_reseq	-0.429	0.813
low_pH_jason_reseq	2.832	-0.965
NO_jason_reseq	-1.168	-0.761
B6_jason_reseq	-1.443	0.082
MHCII_jason_reseq	0.527	-0.367
Isoniazid02	0.24	-0.346
Rifampicin4	-0.915	-0.709
Ethambutol3	1.484	-0.343
Meropenem3	-0.53	-0.765
Vancomycin16	-1.47	-0.053
Rv2680_day32	0.249	0.985
H37Rv_KO_MarP	-1.381	-0.008
hypoxia_3wks	-2.703	-1.025
hypoxia_6wks	-2.955	-0.265
glycerol	0.231	-0.933
cholesterol	-0.36	-0.517
AJ	-0.761	-0.679
Bibs02	-0.319	0.878
Bibs02c	-0.317	0.697
BL6	2.042	0.885
BL6a	0.644	0.422
BXD01	1.487	0.19
BXD010	1.227	0.059
BXD011	-0.026	0.262
BXD03	2.173	0.478
BXD04	1.113	0.068
BXD05	0.154	0.698
BXD06	0.511	0.355
BXD07	0.605	0.167
BXD08	0.793	0.438
BXD09	1.114	0.363
CAST	0.179	-0.289
CCcont	2.186	1.188
DS01	-0.25	0.183
DS02	-0.54	-0.072
DS04	-1.33	0.572
DS0c	1.141	-0.083
GP01	1.385	0.187
GP02	0.271	-0.69
GP0c	2.192	-0.935
NOD	-0.446	-0.295
NZO	-0.04	-0.767
PWK	0.52	-0.163
H37Rv_KO_CtpC	0.95	0.154
H37Rv_KO_CtpD	2.27	1.731
H37Rv_KO_Rv1272	1.846	0.848
H37Rv_KO_SugABC	-1.157	1.386
H37Rv_KO_MbtN	1.155	-0.315
Trans05	1.371	0.03
macrophage_unactivated	0.669	0.265
IL1	0.05	0.409
Rapamycin	-0.638	0.69
Tcell	-0.176	-0.541
GMCSF	-0.549	0.393
IFNab	-0.275	0.242
IFNg	-1.539	0.398
IFNg_GMCSF1	-0.984	0.795
Rv1432_day32	4.1	0.194
Rv1565c_day32	-0.415	0.117
secA2_input	0.484	-0.418
delta_Rv3594	2.183	1.086
delta_Rv3717	2.034	0.703
delta_Rv3811	1.828	0.747
delta_Rv0954	0.766	1.417
PonA1	0.856	-0.212
EccD1_KO	-0.895	-0.615
EspI_KO	-2.13	-0.331
PE35_KO	-0.356	-0.079
PPE68_KO	0.403	0.214
glycerol2	3.869	2.285
lignocerate	3.653	2.814
oleate	-1.202	-1.163
phosphatidylcholine	3.064	2.129
acetate	3.807	2.72
glucAc	3.201	2.553
Rv0950ko	-0.476	0.033
Rv1096ko	-2.063	-0.549
Rv3684ko	-0.252	-0.416
delta_otsA_trehalose	0.739	0.021