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 Rv3032/-:

update plot	correlation	link to info on gene
Rv1208/gpgS	(cc=0.7693)	info on Rv1208/gpgS
Rv2130c/mshC	(cc=0.7094)	info on Rv2130c/mshC
Rv2907c/rimM	(cc=0.686)	info on Rv2907c/rimM
Rv2980/-	(cc=0.6653)	info on Rv2980/-
Rv1437/pgk	(cc=0.6545)	info on Rv1437/pgk
Rv1242/vapC33	(cc=0.6406)	info on Rv1242/vapC33
Rv1002c/-	(cc=0.6104)	info on Rv1002c/-
Rv2359/zur	(cc=0.5922)	info on Rv2359/zur
Rv2470/glbO	(cc=0.5878)	info on Rv2470/glbO
Rv1023/eno	(cc=0.5871)	info on Rv1023/eno

Correlation of Rv3032/- with Rv2907c/rimM

Normalized LFCs for Rv3032/-:
(description and provenance of datasets)

	Rv3032/-	Rv2907c/rimM
Fe_supp_jason_reseq	0.0	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.362
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.0	0.32
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.249	0.0
H37Rv_KO_MarP	-0.151	0.669
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	0.0
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	0.0
CCcont	0.285	0.285
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	0.0
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	0.806	0.856
delta_Rv3594	0.402	0.58
delta_Rv3717	0.331	0.61
delta_Rv3811	0.0	0.205
delta_Rv0954	0.49	0.34
PonA1	0.0	0.0
EccD1_KO	0.378	0.0
EspI_KO	3.18	1.184
PE35_KO	2.739	0.939
PPE68_KO	1.872	1.609
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	-0.669
Rv1096ko	0.347	-1.05
Rv3684ko	1.055	0.327
delta_otsA_trehalose	1.151	0.0