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 Rv3684/-:

update plot	correlation	link to info on gene
Rv2592c/ruvB	(cc=0.4821)	info on Rv2592c/ruvB
Rv3881c/espB	(cc=0.4647)	info on Rv3881c/espB
Rv3615c/espC	(cc=0.4336)	info on Rv3615c/espC
Rv3882c/eccE1	(cc=0.4285)	info on Rv3882c/eccE1
Rv2606c/snzP	(cc=0.4242)	info on Rv2606c/snzP
Rv0043c/-	(cc=0.4205)	info on Rv0043c/-
Rv0687/-	(cc=0.419)	info on Rv0687/-
Rv2411c/-	(cc=0.4075)	info on Rv2411c/-
Rv3880c/espL	(cc=0.4046)	info on Rv3880c/espL
Rv3614c/espD	(cc=0.4006)	info on Rv3614c/espD

Correlation of Rv3684/- with Rv2592c/ruvB

Normalized LFCs for Rv3684/-:
(description and provenance of datasets)

	Rv3684/-	Rv2592c/ruvB
Fe_supp_jason_reseq	0.339	0.0
low_pH_jason_reseq	0.201	0.0
NO_jason_reseq	-0.242	0.0
B6_jason_reseq	-0.709	0.0
MHCII_jason_reseq	-0.206	0.0
Isoniazid02	0.592	0.156
Rifampicin4	-0.498	-0.311
Ethambutol3	0.376	-0.293
Meropenem3	-0.954	-0.138
Vancomycin16	-0.17	-0.639
Rv2680_day32	-1.084	0.0
H37Rv_KO_MarP	0.78	-0.313
hypoxia_3wks	-0.04	0.0
hypoxia_6wks	-0.365	0.0
glycerol	-0.633	0.0
cholesterol	-0.27	0.0
AJ	-0.452	0.0
Bibs02	-1.518	0.0
Bibs02c	-2.128	0.0
BL6	-0.256	0.0
BL6a	-1.749	0.0
BXD01	-0.218	0.0
BXD010	-0.898	0.0
BXD011	-0.994	0.0
BXD03	-0.497	0.0
BXD04	-0.51	0.0
BXD05	-0.525	0.0
BXD06	-0.597	0.0
BXD07	-0.686	0.0
BXD08	-0.564	0.0
BXD09	-1.007	0.0
CAST	-1.058	0.0
CCcont	0.101	0.285
DS01	-1.201	0.0
DS02	-1.397	0.0
DS04	-1.713	0.0
DS0c	-1.075	0.0
GP01	-1.255	0.0
GP02	-1.252	0.0
GP0c	0.639	0.0
NOD	-1.287	0.0
NZO	0.205	0.0
PWK	-1.662	0.0
H37Rv_KO_CtpC	-0.805	0.0
H37Rv_KO_CtpD	0.527	0.0
H37Rv_KO_Rv1272	-0.533	0.0
H37Rv_KO_SugABC	-2.145	0.0
H37Rv_KO_MbtN	-0.524	0.0
Trans05	0.257	0.0
macrophage_unactivated	-0.42	0.0
IL1	-1.551	0.0
Rapamycin	-1.074	0.0
Tcell	-1.14	0.0
GMCSF	-0.114	0.0
IFNab	-0.263	0.0
IFNg	-0.195	0.0
IFNg_GMCSF1	-1.1	0.0
Rv1432_day32	-0.398	0.0
Rv1565c_day32	-0.439	0.0
secA2_input	1.146	1.263
delta_Rv3594	0.448	0.402
delta_Rv3717	0.306	0.0
delta_Rv3811	1.161	0.391
delta_Rv0954	0.963	0.34
PonA1	0.376	0.304
EccD1_KO	-0.46	-0.454
EspI_KO	-0.339	0.0
PE35_KO	0.111	-0.403
PPE68_KO	-0.448	0.0
glycerol2	0.797	0.0
lignocerate	0.426	0.0
oleate	0.869	0.0
phosphatidylcholine	0.511	0.0
acetate	-0.354	0.0
glucAc	-0.254	0.0
Rv0950ko	0.443	0.0
Rv1096ko	0.226	-0.347
Rv3684ko	-5.361	-1.241
delta_otsA_trehalose	-1.142	-0.889