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 Rv3670/ephE:

update plot	correlation	link to info on gene
Rv2678c/hemE	(cc=0.7004)	info on Rv2678c/hemE
Rv0637/hadC	(cc=0.6912)	info on Rv0637/hadC
Rv3753c/-	(cc=0.6718)	info on Rv3753c/-
Rv3673c/-	(cc=0.6695)	info on Rv3673c/-
Rv3789/-	(cc=0.6629)	info on Rv3789/-
Rv2882c/frr	(cc=0.651)	info on Rv2882c/frr
Rv0701/rplC	(cc=0.6254)	info on Rv0701/rplC
Rv3258c/-	(cc=0.6211)	info on Rv3258c/-
Rv2164c/-	(cc=0.6159)	info on Rv2164c/-
Rv2968c/-	(cc=0.5958)	info on Rv2968c/-

Correlation of Rv3670/ephE with Rv2882c/frr

Normalized LFCs for Rv3670/ephE:
(description and provenance of datasets)

	Rv3670/ephE	Rv2882c/frr
Fe_supp_jason_reseq	1.209	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.362	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	-0.201
Rifampicin4	0.0	0.341
Ethambutol3	0.0	0.293
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.923
Rv2680_day32	-1.357	0.0
H37Rv_KO_MarP	-2.095	0.371
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	-0.202
cholesterol	0.0	-0.145
AJ	0.0	0.212
Bibs02	0.0	-0.183
Bibs02c	0.0	0.527
BL6	0.0	-0.125
BL6a	0.0	-0.198
BXD01	0.0	-0.13
BXD010	0.0	-0.128
BXD011	0.0	-0.127
BXD03	0.0	0.0
BXD04	0.0	-0.124
BXD05	0.0	-0.135
BXD06	0.0	0.762
BXD07	0.0	-0.138
BXD08	0.0	-0.133
BXD09	0.0	-0.14
CAST	0.0	-0.23
CCcont	0.149	-0.149
DS01	0.0	-0.236
DS02	0.0	-0.217
DS04	0.953	-0.194
DS0c	0.0	0.0
GP01	0.0	-0.099
GP02	0.0	-0.083
GP0c	0.0	-0.13
NOD	0.0	-0.225
NZO	0.0	0.182
PWK	0.0	1.009
H37Rv_KO_CtpC	0.0	-0.162
H37Rv_KO_CtpD	0.0	-0.127
H37Rv_KO_Rv1272	0.0	-0.141
H37Rv_KO_SugABC	0.348	-0.099
H37Rv_KO_MbtN	0.283	-0.103
Trans05	0.0	-0.131
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	-0.216	0.568
delta_Rv3594	0.266	-0.176
delta_Rv3717	1.669	-0.477
delta_Rv3811	0.126	-0.564
delta_Rv0954	-4.534	-0.49
PonA1	-0.866	-0.437
EccD1_KO	-2.355	-2.519
EspI_KO	-4.894	-2.185
PE35_KO	-3.949	-2.234
PPE68_KO	-3.404	-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	0.0
Rv0950ko	1.049	1.462
Rv1096ko	0.727	1.143
Rv3684ko	2.325	0.0
delta_otsA_trehalose	-1.743	0.0