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 Rv0637/hadC

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

	Rv2968c/-	Rv0637/hadC
Fe_supp_jason_reseq	0.0	3.157
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	0.0
Rifampicin4	1.278	0.0
Ethambutol3	0.109	0.0
Meropenem3	0.055	0.0
Vancomycin16	2.263	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-2.11	-2.066
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	0.348
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	0.448
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	2.123
DS01	0.236	0.0
DS02	0.0	0.0
DS04	0.194	0.194
DS0c	0.0	0.0
GP01	0.715	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.446	0.309
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	1.102	0.099
H37Rv_KO_MbtN	0.0	0.506
Trans05	0.249	0.131
macrophage_unactivated	-0.436	0.0
IL1	-0.409	0.0
Rapamycin	0.0	0.0
Tcell	0.411	0.0
GMCSF	-0.364	0.0
IFNab	-0.417	0.0
IFNg	-0.369	0.0
IFNg_GMCSF1	-0.434	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.116	0.787
delta_Rv3594	-0.471	0.295
delta_Rv3717	-0.771	2.47
delta_Rv3811	-1.181	-1.19
delta_Rv0954	-1.782	-0.734
PonA1	-1.287	-3.83
EccD1_KO	-1.51	-2.342
EspI_KO	-2.493	-3.246
PE35_KO	-1.613	-1.193
PPE68_KO	-0.928	-3.024
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	1.906
Rv1096ko	0.832	0.211
Rv3684ko	0.0	0.452
delta_otsA_trehalose	0.164	0.0