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 Rv2593c/ruvA:

update plot	correlation	link to info on gene
Rv3274c/fadE25	(cc=0.4984)	info on Rv3274c/fadE25
Rv1157c/-	(cc=0.3966)	info on Rv1157c/-
Rv3593/lpqF	(cc=0.3871)	info on Rv3593/lpqF
Rv0495c/-	(cc=0.3836)	info on Rv0495c/-
Rv2522c/-	(cc=0.3582)	info on Rv2522c/-
Rv0324/-	(cc=0.3537)	info on Rv0324/-
Rv2198c/mmpS3	(cc=0.3531)	info on Rv2198c/mmpS3
Rv1423/whiA	(cc=0.3485)	info on Rv1423/whiA
Rv3243c/-	(cc=0.3458)	info on Rv3243c/-
Rv0859/fadA	(cc=0.337)	info on Rv0859/fadA

Correlation of Rv2593c/ruvA with Rv3274c/fadE25

Normalized LFCs for Rv2593c/ruvA:
(description and provenance of datasets)

	Rv2593c/ruvA	Rv3274c/fadE25
Fe_supp_jason_reseq	0.218	3.214
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	0.0	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.341
Ethambutol3	0.153	1.575
Meropenem3	0.151	1.033
Vancomycin16	0.0	0.639
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.255	0.715
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	1.355	3.48
cholesterol	0.145	1.261
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	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	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	1.785
CCcont	0.0	1.43
DS01	0.0	0.0
DS02	0.0	0.597
DS04	0.0	0.37
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.789
NZO	0.0	0.0
PWK	0.0	0.963
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.103
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.157	0.42
delta_Rv3594	0.0	-1.127
delta_Rv3717	-0.331	-0.522
delta_Rv3811	-0.391	-1.096
delta_Rv0954	0.416	-0.536
PonA1	-0.304	0.159
EccD1_KO	0.414	-1.47
EspI_KO	-0.394	-1.668
PE35_KO	0.0	0.767
PPE68_KO	-0.442	0.0
glycerol2	0.0	-0.87
lignocerate	0.0	-0.627
oleate	0.0	-0.73
phosphatidylcholine	0.0	-0.581
acetate	1.662	1.342
glucAc	0.0	0.554
Rv0950ko	-0.727	-2.376
Rv1096ko	-0.347	-2.376
Rv3684ko	0.0	-2.581
delta_otsA_trehalose	0.35	-0.926