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 Rv3302c/glpD2:

update plot	correlation	link to info on gene
Rv1122/gnd2	(cc=0.8513)	info on Rv1122/gnd2
Rv1631/coaE	(cc=0.6972)	info on Rv1631/coaE
Rv0412c/-	(cc=0.5469)	info on Rv0412c/-
Rv0410c/pknG	(cc=0.5389)	info on Rv0410c/pknG
Rv3583c/-	(cc=0.4879)	info on Rv3583c/-
Rv2115c/mpa	(cc=0.4817)	info on Rv2115c/mpa
Rv0411c/glnH	(cc=0.4626)	info on Rv0411c/glnH
Rv2097c/pafA	(cc=0.4546)	info on Rv2097c/pafA
Rv3215/entC	(cc=0.4411)	info on Rv3215/entC
Rv1388/mihF	(cc=0.4389)	info on Rv1388/mihF

Correlation of Rv3302c/glpD2 with Rv0412c/-

Normalized LFCs for Rv3302c/glpD2:
(description and provenance of datasets)

	Rv3302c/glpD2	Rv0412c/-
Fe_supp_jason_reseq	1.579	0.218
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	-0.201
Rifampicin4	0.0	-0.374
Ethambutol3	0.0	-0.168
Meropenem3	0.0	-0.165
Vancomycin16	0.0	-0.366
Rv2680_day32	0.0	-0.459
H37Rv_KO_MarP	0.0	-3.728
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	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	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.127
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	0.0
CCcont	0.0	1.082
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.0
GP01	0.0	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	0.0	0.162
H37Rv_KO_CtpD	0.0	0.537
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.506
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	0.0	-0.045
delta_Rv3594	0.0	-0.211
delta_Rv3717	0.0	-0.174
delta_Rv3811	0.0	-0.205
delta_Rv0954	0.0	1.375
PonA1	4.912	4.458
EccD1_KO	0.0	-1.799
EspI_KO	0.0	-0.838
PE35_KO	0.0	2.972
PPE68_KO	0.0	2.476
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	0.0	-1.134
Rv1096ko	0.0	-0.09
Rv3684ko	0.0	1.647
delta_otsA_trehalose	0.0	-0.564