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 Rv3583c/-

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

	Rv3302c/glpD2	Rv3583c/-
Fe_supp_jason_reseq	1.579	0.706
low_pH_jason_reseq	0.0	-0.231
NO_jason_reseq	0.0	0.331
B6_jason_reseq	0.0	-0.153
MHCII_jason_reseq	0.0	-0.135
Isoniazid02	0.0	-0.706
Rifampicin4	0.0	-0.601
Ethambutol3	0.0	0.0
Meropenem3	0.0	-0.128
Vancomycin16	0.0	-0.589
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.0	-0.371
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.385
cholesterol	0.0	0.276
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.343
BL6a	0.0	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	1.109
BXD03	0.0	0.371
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.365
BXD09	0.0	0.14
CAST	0.0	0.23
CCcont	0.0	0.525
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	0.0
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	1.286
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.701
IL1	0.0	-0.374
Rapamycin	0.0	0.681
Tcell	0.0	-0.857
GMCSF	0.0	1.096
IFNab	0.0	0.348
IFNg	0.0	-0.337
IFNg_GMCSF1	0.0	1.012
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.0	1.061
delta_Rv3594	0.0	0.0
delta_Rv3717	0.0	0.477
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	0.178
PonA1	4.912	2.179
EccD1_KO	0.0	0.73
EspI_KO	0.0	-0.359
PE35_KO	0.0	0.0
PPE68_KO	0.0	0.368
glycerol2	0.0	-0.82
lignocerate	0.0	-0.712
oleate	0.0	-0.829
phosphatidylcholine	0.0	-0.819
acetate	0.0	-0.973
glucAc	0.0	-0.605
Rv0950ko	0.0	0.0
Rv1096ko	0.0	0.0
Rv3684ko	0.0	-0.452
delta_otsA_trehalose	0.0	0.0