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 Rv2968c/-:

update plot	correlation	link to info on gene
Rv3670/ephE	(cc=0.5958)	info on Rv3670/ephE
Rv2582/ppiB	(cc=0.5874)	info on Rv2582/ppiB
Rv2373c/dnaJ2	(cc=0.5745)	info on Rv2373c/dnaJ2
Rv2882c/frr	(cc=0.5537)	info on Rv2882c/frr
Rv3489/-	(cc=0.5494)	info on Rv3489/-
Rv0637/hadC	(cc=0.527)	info on Rv0637/hadC
Rv0736/rslA	(cc=0.5222)	info on Rv0736/rslA
Rv3789/-	(cc=0.5195)	info on Rv3789/-
Rv3673c/-	(cc=0.4972)	info on Rv3673c/-
Rv2678c/hemE	(cc=0.4874)	info on Rv2678c/hemE

Correlation of Rv2968c/- with Rv2582/ppiB

Normalized LFCs for Rv2968c/-:
(description and provenance of datasets)

	Rv2968c/-	Rv2582/ppiB
Fe_supp_jason_reseq	0.0	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.572	0.0
Isoniazid02	-1.027	-0.281
Rifampicin4	1.278	0.0
Ethambutol3	0.109	-0.365
Meropenem3	0.055	-0.231
Vancomycin16	2.263	0.451
Rv2680_day32	0.0	-0.828
H37Rv_KO_MarP	-2.11	-1.112
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.263	0.0
glycerol	0.0	0.0
cholesterol	0.509	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.64	0.0
BXD010	0.0	0.0
BXD011	0.127	0.0
BXD03	0.371	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	1.002	0.917
DS01	0.236	0.0
DS02	0.0	0.0
DS04	0.194	0.533
DS0c	0.0	0.0
GP01	0.715	0.0
GP02	0.0	0.083
GP0c	0.0	0.872
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.446	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	1.102	0.42
H37Rv_KO_MbtN	0.0	1.796
Trans05	0.249	0.0
macrophage_unactivated	-0.436	-0.436
IL1	-0.409	-0.409
Rapamycin	0.0	-0.424
Tcell	0.411	-0.45
GMCSF	-0.364	-0.364
IFNab	-0.417	-0.417
IFNg	-0.369	-0.369
IFNg_GMCSF1	-0.434	-0.434
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.116	-1.368
delta_Rv3594	-0.471	-1.354
delta_Rv3717	-0.771	-2.372
delta_Rv3811	-1.181	-2.803
delta_Rv0954	-1.782	-1.828
PonA1	-1.287	-1.937
EccD1_KO	-1.51	-2.23
EspI_KO	-2.493	-1.934
PE35_KO	-1.613	0.0
PPE68_KO	-0.928	-2.489
glycerol2	-0.531	0.0
lignocerate	-0.462	0.0
oleate	-0.537	0.0
phosphatidylcholine	-0.531	0.0
acetate	1.15	0.0
glucAc	0.915	0.0
Rv0950ko	0.0	-0.844
Rv1096ko	0.832	-1.517
Rv3684ko	0.0	0.269
delta_otsA_trehalose	0.164	-0.084