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 Rv1360/-:

update plot	correlation	link to info on gene
Rv3327/-	(cc=0.5271)	info on Rv3327/-
Rv3219/whiB1	(cc=0.5142)	info on Rv3219/whiB1
Rv0999/-	(cc=0.5)	info on Rv0999/-
Rv0373c/-	(cc=0.4694)	info on Rv0373c/-
Rv3453/-	(cc=0.451)	info on Rv3453/-
Rv3775/lipE	(cc=0.4471)	info on Rv3775/lipE
Rv1860/apa	(cc=0.439)	info on Rv1860/apa
Rv0129c/fbpC	(cc=0.438)	info on Rv0129c/fbpC
Rv0862c/-	(cc=0.4371)	info on Rv0862c/-
Rv0361/-	(cc=0.4267)	info on Rv0361/-

Correlation of Rv1360/- with Rv3219/whiB1

Normalized LFCs for Rv1360/-:
(description and provenance of datasets)

	Rv1360/-	Rv3219/whiB1
Fe_supp_jason_reseq	-0.175	0.0
low_pH_jason_reseq	-0.99	0.0
NO_jason_reseq	-0.32	0.0
B6_jason_reseq	0.169	0.0
MHCII_jason_reseq	0.366	0.0
Isoniazid02	-1.455	-0.706
Rifampicin4	-2.434	-0.942
Ethambutol3	-0.929	-0.13
Meropenem3	1.791	0.12
Vancomycin16	-1.937	-0.923
Rv2680_day32	0.253	0.0
H37Rv_KO_MarP	0.368	-0.195
hypoxia_3wks	0.235	0.0
hypoxia_6wks	0.28	0.0
glycerol	0.281	0.0
cholesterol	2.114	0.0
AJ	0.2	0.0
Bibs02	0.268	0.0
Bibs02c	0.47	0.0
BL6	-0.114	0.0
BL6a	0.296	0.0
BXD01	-0.543	0.0
BXD010	-0.187	0.0
BXD011	-0.125	0.0
BXD03	0.031	0.0
BXD04	-0.326	0.0
BXD05	0.183	0.0
BXD06	-0.195	0.0
BXD07	0.0	0.0
BXD08	-0.292	0.0
BXD09	-0.234	0.0
CAST	0.32	0.0
CCcont	0.109	0.0
DS01	0.445	0.0
DS02	0.093	0.0
DS04	0.072	0.0
DS0c	0.206	0.0
GP01	-0.235	0.0
GP02	0.366	0.0
GP0c	-0.086	0.0
NOD	0.488	0.0
NZO	-0.208	0.0
PWK	0.408	0.0
H37Rv_KO_CtpC	-0.317	0.162
H37Rv_KO_CtpD	-0.061	0.0
H37Rv_KO_Rv1272	-0.527	0.0
H37Rv_KO_SugABC	0.172	0.0
H37Rv_KO_MbtN	-0.208	0.103
Trans05	-0.07	0.0
macrophage_unactivated	-0.035	0.0
IL1	-0.033	0.0
Rapamycin	0.064	0.0
Tcell	-0.081	0.0
GMCSF	0.576	0.0
IFNab	-0.323	0.0
IFNg	0.249	0.0
IFNg_GMCSF1	-0.496	0.0
Rv1432_day32	-0.064	0.0
Rv1565c_day32	0.114	0.0
secA2_input	0.016	0.0
delta_Rv3594	0.497	0.402
delta_Rv3717	-0.164	0.0
delta_Rv3811	-0.065	0.0
delta_Rv0954	0.516	0.0
PonA1	0.804	0.0
EccD1_KO	0.329	0.454
EspI_KO	0.034	0.394
PE35_KO	0.455	0.0
PPE68_KO	0.115	1.213
glycerol2	0.034	0.0
lignocerate	0.132	0.0
oleate	-0.106	0.0
phosphatidylcholine	0.092	0.0
acetate	-0.366	0.0
glucAc	-0.192	0.0
Rv0950ko	0.121	0.416
Rv1096ko	-0.38	0.0
Rv3684ko	-0.033	0.452
delta_otsA_trehalose	-0.424	0.0