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 Rv3601c/panD:

update plot	correlation	link to info on gene
Rv2130c/mshC	(cc=0.8918)	info on Rv2130c/mshC
Rv1208/gpgS	(cc=0.7922)	info on Rv1208/gpgS
Rv1436/gap	(cc=0.7527)	info on Rv1436/gap
Rv1002c/-	(cc=0.7148)	info on Rv1002c/-
Rv2391/sirA	(cc=0.6488)	info on Rv2391/sirA
Rv0411c/glnH	(cc=0.5878)	info on Rv0411c/glnH
Rv0410c/pknG	(cc=0.5819)	info on Rv0410c/pknG
Rv3603c/-	(cc=0.5808)	info on Rv3603c/-
Rv1540/-	(cc=0.5726)	info on Rv1540/-
Rv3275c/purE	(cc=0.5713)	info on Rv3275c/purE

Correlation of Rv3601c/panD with Rv1208/gpgS

Normalized LFCs for Rv3601c/panD:
(description and provenance of datasets)

	Rv3601c/panD	Rv1208/gpgS
Fe_supp_jason_reseq	0.0	0.0
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	0.374	0.0
Ethambutol3	0.168	0.0
Meropenem3	0.0	0.0
Vancomycin16	0.366	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.195	0.0
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	0.0	0.149
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	0.0
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	-0.593	-1.234
delta_Rv3594	0.0	0.0
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	0.178
PonA1	0.304	0.0
EccD1_KO	-0.454	0.454
EspI_KO	-0.394	1.383
PE35_KO	3.454	2.234
PPE68_KO	1.731	2.451
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	0.272
Rv0950ko	0.416	0.416
Rv1096ko	0.793	0.416
Rv3684ko	1.916	1.241
delta_otsA_trehalose	0.254	0.133