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 Rv2592c/ruvB:

update plot	correlation	link to info on gene
Rv2202c/adoK	(cc=0.6533)	info on Rv2202c/adoK
Rv0651/rplJ	(cc=0.5505)	info on Rv0651/rplJ
Rv2965c/kdtB	(cc=0.5422)	info on Rv2965c/kdtB
Rv1636/TB15.3	(cc=0.5406)	info on Rv1636/TB15.3
Rv2246/kasB	(cc=0.5276)	info on Rv2246/kasB
Rv1177/fdxC	(cc=0.5242)	info on Rv1177/fdxC
Rv2827c/-	(cc=0.5108)	info on Rv2827c/-
Rv2256c/-	(cc=0.5085)	info on Rv2256c/-
Rv2603c/-	(cc=0.5)	info on Rv2603c/-
Rv1685c/-	(cc=0.4829)	info on Rv1685c/-

Correlation of Rv2592c/ruvB with Rv2827c/-

Normalized LFCs for Rv2592c/ruvB:
(description and provenance of datasets)

	Rv2592c/ruvB	Rv2827c/-
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	0.156	-0.183
Rifampicin4	-0.311	-0.712
Ethambutol3	-0.293	-0.153
Meropenem3	-0.138	-0.315
Vancomycin16	-0.639	-0.334
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.313	-0.491
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	0.0
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	0.162
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	-0.494
Rv1565c_day32	0.0	0.0
secA2_input	1.263	1.234
delta_Rv3594	0.402	0.58
delta_Rv3717	0.0	0.0
delta_Rv3811	0.391	0.205
delta_Rv0954	0.34	0.756
PonA1	0.304	0.437
EccD1_KO	-0.454	1.595
EspI_KO	0.0	0.394
PE35_KO	-0.403	0.767
PPE68_KO	0.0	0.841
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	-0.38
Rv1096ko	-0.347	0.0
Rv3684ko	-1.241	-0.413
delta_otsA_trehalose	-0.889	-2.961