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 Rv3902c/-

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

	Rv0808/purF	Rv3902c/-
Fe_supp_jason_reseq	0.38	0.415
low_pH_jason_reseq	1.188	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.263	0.201
Rifampicin4	-0.49	0.0
Ethambutol3	-0.34	0.0
Meropenem3	-0.335	0.0
Vancomycin16	-0.231	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.546	-0.195
hypoxia_3wks	-0.427	0.0
hypoxia_6wks	0.209	0.0
glycerol	0.471	0.0
cholesterol	-0.132	0.0
AJ	0.845	0.0
Bibs02	-0.348	0.0
Bibs02c	-0.399	0.0
BL6	0.0	0.0
BL6a	0.462	0.0
BXD01	-0.119	0.0
BXD010	-0.244	0.0
BXD011	0.745	0.0
BXD03	0.113	0.0
BXD04	-0.113	0.0
BXD05	0.0	0.0
BXD06	0.566	0.0
BXD07	0.323	0.0
BXD08	0.564	0.0
BXD09	0.89	0.0
CAST	-0.439	0.0
CCcont	0.124	0.0
DS01	0.0	0.0
DS02	0.181	0.0
DS04	-0.177	0.0
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.737	0.0
GP0c	0.303	0.0
NOD	-0.428	0.0
NZO	0.0	0.0
PWK	-0.374	0.0
H37Rv_KO_CtpC	0.261	0.0
H37Rv_KO_CtpD	-0.116	0.0
H37Rv_KO_Rv1272	0.117	0.783
H37Rv_KO_SugABC	-0.09	0.0
H37Rv_KO_MbtN	-0.196	0.0
Trans05	0.827	0.459
macrophage_unactivated	0.571	0.0
IL1	0.276	0.0
Rapamycin	0.807	0.0
Tcell	0.303	0.0
GMCSF	0.478	0.0
IFNab	1.031	0.0
IFNg	0.484	0.0
IFNg_GMCSF1	0.569	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.302	0.0
delta_Rv3594	0.742	0.402
delta_Rv3717	0.477	0.174
delta_Rv3811	1.008	0.0
delta_Rv0954	2.762	0.0
PonA1	0.783	0.0
EccD1_KO	0.865	0.0
EspI_KO	1.934	0.359
PE35_KO	1.415	0.368
PPE68_KO	0.579	0.0
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.229	0.0
glucAc	0.143	0.143
Rv0950ko	-1.668	-1.462
Rv1096ko	-0.639	-1.05
Rv3684ko	-2.135	-1.14
delta_otsA_trehalose	-1.235	0.0