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 Rv1308/atpA:

update plot	correlation	link to info on gene
Rv3696c/glpK	(cc=0.5394)	info on Rv3696c/glpK
Rv0552/-	(cc=0.5078)	info on Rv0552/-
Rv2655c/-	(cc=0.4973)	info on Rv2655c/-
Rv0879c/-	(cc=0.4924)	info on Rv0879c/-
Rv2709/-	(cc=0.4799)	info on Rv2709/-
Rv2334/cysK1	(cc=0.4791)	info on Rv2334/cysK1
Rv1712/cmk	(cc=0.4749)	info on Rv1712/cmk
Rv0362/mgtE	(cc=0.441)	info on Rv0362/mgtE
Rv3248c/sahH	(cc=0.4369)	info on Rv3248c/sahH
Rv0270/fadD2	(cc=0.4319)	info on Rv0270/fadD2

Correlation of Rv1308/atpA with Rv3248c/sahH

Normalized LFCs for Rv1308/atpA:
(description and provenance of datasets)

	Rv1308/atpA	Rv3248c/sahH
Fe_supp_jason_reseq	0.655	0.0
low_pH_jason_reseq	4.256	0.634
NO_jason_reseq	3.208	0.362
B6_jason_reseq	1.57	0.0
MHCII_jason_reseq	-0.257	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.168	0.0
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	1.782	0.371
hypoxia_3wks	-0.961	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.531	0.0
cholesterol	-0.509	0.0
AJ	-0.18	0.0
Bibs02	1.031	0.0
Bibs02c	0.293	0.0
BL6	-0.439	0.0
BL6a	-0.499	0.0
BXD01	1.167	0.0
BXD010	-0.45	0.0
BXD011	0.407	0.0
BXD03	-0.475	0.0
BXD04	-0.312	0.0
BXD05	0.636	0.0
BXD06	0.351	0.0
BXD07	0.718	0.0
BXD08	-0.214	0.0
BXD09	0.285	0.0
CAST	0.859	0.0
CCcont	-0.525	0.0
DS01	-0.38	0.0
DS02	0.158	0.0
DS04	1.093	0.0
DS0c	0.44	0.0
GP01	-0.347	0.0
GP02	-0.21	0.0
GP0c	-0.457	0.0
NOD	0.0	0.0
NZO	1.849	0.0
PWK	0.274	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	1.135	0.127
H37Rv_KO_Rv1272	-0.495	0.0
H37Rv_KO_SugABC	-0.348	0.0
H37Rv_KO_MbtN	0.821	0.0
Trans05	0.265	0.0
macrophage_unactivated	-0.436	0.0
IL1	-0.409	0.0
Rapamycin	-0.424	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	-0.218
secA2_input	0.302	0.916
delta_Rv3594	-0.119	1.127
delta_Rv3717	0.424	-0.159
delta_Rv3811	-1.377	0.986
delta_Rv0954	-1.196	-0.34
PonA1	-1.069	-0.304
EccD1_KO	0.414	0.0
EspI_KO	-0.394	0.0
PE35_KO	0.0	0.368
PPE68_KO	0.0	0.0
glycerol2	-1.153	-0.88
lignocerate	-1.296	-0.933
oleate	-0.391	-1.086
phosphatidylcholine	-0.864	-1.073
acetate	-1.026	-1.044
glucAc	-1.1	-0.792
Rv0950ko	0.416	0.0
Rv1096ko	1.463	1.143
Rv3684ko	1.241	0.452
delta_otsA_trehalose	0.133	0.0