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 Rv0297/PE_PGRS5:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3897c/-	(cc=0.7057)	info on Rv3897c/-
Rv1087/PE_PGRS21	(cc=0.6808)	info on Rv1087/PE_PGRS21
Rv0649/fabD2	(cc=0.67)	info on Rv0649/fabD2
Rv1160/mutT2	(cc=0.645)	info on Rv1160/mutT2
Rv3344c/PE_PGRS49	(cc=0.6193)	info on Rv3344c/PE_PGRS49
Rv2841c/nusA	(cc=0.5872)	info on Rv2841c/nusA
Rv0278c/PE_PGRS3	(cc=0.5816)	info on Rv0278c/PE_PGRS3
Rv1610/-	(cc=0.5649)	info on Rv1610/-
Rv3653/PE_PGRS61	(cc=0.5617)	info on Rv3653/PE_PGRS61
Rv3366/spoU	(cc=0.5518)	info on Rv3366/spoU

Correlation of Rv0297/PE_PGRS5 with Rv3897c/-

Normalized LFCs for Rv0297/PE_PGRS5:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0297/PE_PGRS5	Rv3897c/-
Fe_supp_jason_reseq	0.259	0.082
low_pH_jason_reseq	-1.037	-0.552
NO_jason_reseq	-0.486	-1.257
B6_jason_reseq	0.422	0.291
MHCII_jason_reseq	0.472	0.249
Isoniazid02	-0.208	0.07
Rifampicin4	0.75	0.785
Ethambutol3	0.514	0.502
Meropenem3	1.06	0.806
Vancomycin16	-0.186	0.345
Rv2680_day32	1.578	2.136
H37Rv_KO_MarP	-0.168	0.313
hypoxia_3wks	-0.678	-0.754
hypoxia_6wks	-0.637	-0.307
glycerol	0.505	0.96
cholesterol	0.636	0.497
AJ	-0.022	1.434
Bibs02	0.331	1.359
Bibs02c	1.129	1.761
BL6	-0.098	0.482
BL6a	-0.3	0.558
BXD01	0.373	0.25
BXD010	0.0	0.253
BXD011	-1.173	-0.312
BXD03	0.05	0.03
BXD04	-0.839	-0.137
BXD05	-0.119	-0.849
BXD06	-0.372	0.133
BXD07	-0.288	-0.3
BXD08	-0.583	-0.62
BXD09	-0.698	-0.469
CAST	-0.614	0.339
CCcont	-0.435	0.259
DS01	0.253	0.253
DS02	-0.083	1.174
DS04	-1.023	0.59
DS0c	-0.83	-0.277
GP01	1.016	0.834
GP02	1.225	1.263
GP0c	0.827	0.48
NOD	-0.493	0.286
NZO	-0.26	0.799
PWK	0.476	0.519
H37Rv_KO_CtpC	-0.127	-0.049
H37Rv_KO_CtpD	0.793	-0.262
H37Rv_KO_Rv1272	-0.082	0.347
H37Rv_KO_SugABC	0.139	0.126
H37Rv_KO_MbtN	-1.307	0.111
Trans05	-0.332	1.091
macrophage_unactivated	-0.83	-1.174
IL1	-1.611	-1.634
Rapamycin	-1.666	-0.273
Tcell	-1.323	-1.14
GMCSF	-1.119	0.024
IFNab	-1.342	-0.16
IFNg	-2.175	-1.179
IFNg_GMCSF1	-1.455	-0.899
Rv1432_day32	0.252	0.375
Rv1565c_day32	-0.431	-0.199
secA2_input	0.063	1.019
delta_Rv3594	0.503	0.228
delta_Rv3717	0.262	0.263
delta_Rv3811	0.207	0.503
delta_Rv0954	-0.349	-0.456
PonA1	0.051	0.287
EccD1_KO	-0.099	1.128
EspI_KO	-0.656	-0.077
PE35_KO	-0.572	0.172
PPE68_KO	-0.653	0.208
glycerol2	0.68	0.856
lignocerate	0.257	1.299
oleate	0.169	0.133
phosphatidylcholine	0.27	0.668
acetate	0.437	1.219
glucAc	1.49	1.534
Rv0950ko	1.381	1.785
Rv1096ko	0.1	1.984
Rv3684ko	0.511	1.402
delta_otsA_trehalose	0.028	-0.623