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 Rv1690/lprJ:

update plot	correlation	link to info on gene
Rv1274/lprB	(cc=0.4838)	info on Rv1274/lprB
Rv3286c/sigF	(cc=0.4691)	info on Rv3286c/sigF
Rv1473/-	(cc=0.4679)	info on Rv1473/-
Rv3202c/-	(cc=0.4677)	info on Rv3202c/-
Rv2467/pepN	(cc=0.4535)	info on Rv2467/pepN
Rv3160c/-	(cc=0.4409)	info on Rv3160c/-
Rv3032/-	(cc=0.4333)	info on Rv3032/-
Rv1347c/mbtK	(cc=0.4256)	info on Rv1347c/mbtK
Rv2199c/-	(cc=0.4239)	info on Rv2199c/-
Rv0574c/-	(cc=0.4135)	info on Rv0574c/-

Correlation of Rv1690/lprJ with Rv3032/-

Normalized LFCs for Rv1690/lprJ:
(description and provenance of datasets)

	Rv1690/lprJ	Rv3032/-
Fe_supp_jason_reseq	-0.508	0.0
low_pH_jason_reseq	0.925	0.0
NO_jason_reseq	-0.953	0.0
B6_jason_reseq	-0.403	0.0
MHCII_jason_reseq	0.452	0.0
Isoniazid02	-1.132	0.0
Rifampicin4	1.042	0.0
Ethambutol3	-1.121	0.0
Meropenem3	-0.151	0.0
Vancomycin16	-0.451	0.0
Rv2680_day32	-0.476	0.249
H37Rv_KO_MarP	-0.717	-0.151
hypoxia_3wks	-0.275	0.0
hypoxia_6wks	-2.088	0.0
glycerol	0.663	0.0
cholesterol	0.726	0.0
AJ	-1.177	0.0
Bibs02	-1.827	0.0
Bibs02c	1.303	0.0
BL6	-0.195	0.0
BL6a	0.871	0.0
BXD01	-0.132	0.0
BXD010	0.776	0.0
BXD011	-0.581	0.0
BXD03	-1.408	0.0
BXD04	-0.504	0.0
BXD05	-1.886	0.0
BXD06	-0.643	0.0
BXD07	-0.598	0.0
BXD08	0.143	0.0
BXD09	-0.713	0.0
CAST	-1.942	0.0
CCcont	0.559	0.285
DS01	0.075	0.0
DS02	-0.786	0.0
DS04	-1.781	0.0
DS0c	-1.045	0.0
GP01	0.031	0.0
GP02	0.881	0.0
GP0c	0.365	0.0
NOD	0.072	0.0
NZO	0.535	0.0
PWK	-1.878	0.0
H37Rv_KO_CtpC	-0.314	0.0
H37Rv_KO_CtpD	0.53	0.0
H37Rv_KO_Rv1272	-0.831	0.0
H37Rv_KO_SugABC	0.371	0.0
H37Rv_KO_MbtN	0.362	0.0
Trans05	-1.832	0.0
macrophage_unactivated	0.735	0.0
IL1	-1.092	0.0
Rapamycin	-1.129	0.0
Tcell	1.14	0.0
GMCSF	-1.497	0.0
IFNab	-2.05	0.0
IFNg	-1.376	0.0
IFNg_GMCSF1	0.327	0.0
Rv1432_day32	-0.056	0.0
Rv1565c_day32	1.714	0.0
secA2_input	0.513	0.806
delta_Rv3594	0.346	0.402
delta_Rv3717	-0.195	0.331
delta_Rv3811	0.457	0.0
delta_Rv0954	0.123	0.49
PonA1	0.666	0.0
EccD1_KO	0.428	0.378
EspI_KO	1.991	3.18
PE35_KO	0.986	2.739
PPE68_KO	1.664	1.872
glycerol2	0.797	0.0
lignocerate	0.413	0.0
oleate	0.108	0.0
phosphatidylcholine	0.353	0.0
acetate	0.096	0.0
glucAc	-0.149	0.0
Rv0950ko	1.086	0.0
Rv1096ko	1.616	0.347
Rv3684ko	0.927	1.055
delta_otsA_trehalose	3.883	1.151