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 Rv0808/purF:

update plot	correlation	link to info on gene
Rv2359/zur	(cc=0.5582)	info on Rv2359/zur
Rv3902c/-	(cc=0.5295)	info on Rv3902c/-
Rv3588c/canB	(cc=0.5251)	info on Rv3588c/canB
Rv2827c/-	(cc=0.5175)	info on Rv2827c/-
Rv1432/-	(cc=0.5085)	info on Rv1432/-
Rv2115c/mpa	(cc=0.4861)	info on Rv2115c/mpa
Rv1465/-	(cc=0.4755)	info on Rv1465/-
Rv2558/-	(cc=0.4581)	info on Rv2558/-
Rv0861c/ercc3	(cc=0.4434)	info on Rv0861c/ercc3
Rv1685c/-	(cc=0.4421)	info on Rv1685c/-

Correlation of Rv0808/purF with Rv0861c/ercc3

Normalized LFCs for Rv0808/purF:
(description and provenance of datasets)

	Rv0808/purF	Rv0861c/ercc3
Fe_supp_jason_reseq	0.38	0.423
low_pH_jason_reseq	1.188	-0.055
NO_jason_reseq	0.0	0.633
B6_jason_reseq	-0.153	-1.039
MHCII_jason_reseq	0.0	1.426
Isoniazid02	-0.263	0.419
Rifampicin4	-0.49	-0.125
Ethambutol3	-0.34	0.551
Meropenem3	-0.335	-0.386
Vancomycin16	-0.231	0.04
Rv2680_day32	0.0	0.922
H37Rv_KO_MarP	0.546	0.025
hypoxia_3wks	-0.427	-0.471
hypoxia_6wks	0.209	-0.658
glycerol	0.471	0.891
cholesterol	-0.132	0.663
AJ	0.845	0.392
Bibs02	-0.348	-1.142
Bibs02c	-0.399	-0.056
BL6	0.0	0.343
BL6a	0.462	0.544
BXD01	-0.119	0.458
BXD010	-0.244	0.73
BXD011	0.745	0.819
BXD03	0.113	0.035
BXD04	-0.113	0.124
BXD05	0.0	0.846
BXD06	0.566	0.283
BXD07	0.323	0.68
BXD08	0.564	1.202
BXD09	0.89	0.904
CAST	-0.439	0.389
CCcont	0.124	0.607
DS01	0.0	0.695
DS02	0.181	0.414
DS04	-0.177	0.492
DS0c	0.0	0.46
GP01	0.0	-0.026
GP02	0.737	1.011
GP0c	0.303	0.659
NOD	-0.428	-0.452
NZO	0.0	0.15
PWK	-0.374	0.689
H37Rv_KO_CtpC	0.261	1.259
H37Rv_KO_CtpD	-0.116	1.029
H37Rv_KO_Rv1272	0.117	0.804
H37Rv_KO_SugABC	-0.09	0.678
H37Rv_KO_MbtN	-0.196	1.438
Trans05	0.827	0.894
macrophage_unactivated	0.571	1.111
IL1	0.276	0.899
Rapamycin	0.807	0.531
Tcell	0.303	1.069
GMCSF	0.478	0.734
IFNab	1.031	0.269
IFNg	0.484	0.676
IFNg_GMCSF1	0.569	1.471
Rv1432_day32	0.0	-0.42
Rv1565c_day32	0.0	1.461
secA2_input	0.302	0.448
delta_Rv3594	0.742	1.054
delta_Rv3717	0.477	1.516
delta_Rv3811	1.008	1.304
delta_Rv0954	2.762	1.027
PonA1	0.783	-0.338
EccD1_KO	0.865	0.73
EspI_KO	1.934	0.248
PE35_KO	1.415	1.706
PPE68_KO	0.579	1.609
glycerol2	0.0	-0.64
lignocerate	0.0	-0.257
oleate	0.0	-0.906
phosphatidylcholine	0.0	-0.857
acetate	0.229	-0.49
glucAc	0.143	-0.328
Rv0950ko	-1.668	-1.167
Rv1096ko	-0.639	-0.908
Rv3684ko	-2.135	-0.527
delta_otsA_trehalose	-1.235	0.122