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 Rv2908c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5459)	info on Rv0537c/-
Rv0538/-	(cc=0.4889)	info on Rv0538/-
Rv3060c/-	(cc=0.4787)	info on Rv3060c/-
Rv1178/-	(cc=0.4766)	info on Rv1178/-
Rv0062/celA1	(cc=0.4757)	info on Rv0062/celA1
Rv3075c/-	(cc=0.4744)	info on Rv3075c/-
Rv1081c/-	(cc=0.4638)	info on Rv1081c/-
Rv2506/-	(cc=0.4594)	info on Rv2506/-
Rv3067/-	(cc=0.4353)	info on Rv3067/-
Rv2091c/-	(cc=0.433)	info on Rv2091c/-

Correlation of Rv2908c/- with Rv1081c/-

Normalized LFCs for Rv2908c/-:
(description and provenance of datasets)

	Rv2908c/-	Rv1081c/-
Fe_supp_jason_reseq	0.0	0.415
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	-0.65
Rifampicin4	0.374	-0.872
Ethambutol3	2.247	0.22
Meropenem3	0.165	-0.386
Vancomycin16	0.0	-1.186
Rv2680_day32	0.0	0.095
H37Rv_KO_MarP	2.492	2.237
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.145	0.398
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.125
BL6a	0.0	0.198
BXD01	0.0	0.13
BXD010	0.0	0.0
BXD011	0.0	0.54
BXD03	0.0	0.0
BXD04	0.0	0.124
BXD05	0.0	0.473
BXD06	0.0	0.366
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.494
CAST	0.0	0.0
CCcont	0.149	0.285
DS01	0.0	0.0
DS02	0.217	0.0
DS04	0.0	0.37
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	0.199	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.798
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	0.633
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	0.0	0.739
delta_Rv3594	-0.176	-1.205
delta_Rv3717	-0.477	-0.555
delta_Rv3811	-0.564	-0.369
delta_Rv0954	-0.49	-0.207
PonA1	1.601	0.389
EccD1_KO	0.0	0.286
EspI_KO	0.0	-0.55
PE35_KO	0.403	0.0
PPE68_KO	0.0	-0.298
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.63	0.0
glucAc	0.0	0.0
Rv0950ko	0.727	0.0
Rv1096ko	0.38	-0.302
Rv3684ko	0.789	1.117
delta_otsA_trehalose	0.254	-1.098