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 Rv0736/rslA:

update plot	correlation	link to info on gene
Rv3645/-	(cc=0.6498)	info on Rv3645/-
Rv0701/rplC	(cc=0.6238)	info on Rv0701/rplC
Rv2965c/kdtB	(cc=0.5849)	info on Rv2965c/kdtB
Rv0651/rplJ	(cc=0.5832)	info on Rv0651/rplJ
Rv3673c/-	(cc=0.58)	info on Rv3673c/-
Rv1636/TB15.3	(cc=0.5735)	info on Rv1636/TB15.3
Rv2904c/rplS	(cc=0.5603)	info on Rv2904c/rplS
Rv2135c/-	(cc=0.5513)	info on Rv2135c/-
Rv2603c/-	(cc=0.548)	info on Rv2603c/-
Rv1457c/-	(cc=0.5314)	info on Rv1457c/-

Correlation of Rv0736/rslA with Rv0701/rplC

Normalized LFCs for Rv0736/rslA:
(description and provenance of datasets)

	Rv0736/rslA	Rv0701/rplC
Fe_supp_jason_reseq	1.209	0.0
low_pH_jason_reseq	0.44	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.113	0.0
Rifampicin4	0.912	0.0
Ethambutol3	0.336	0.0
Meropenem3	0.67	0.0
Vancomycin16	0.732	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.0	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	0.917	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	0.13
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	0.127	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.103	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	2.843	1.675
delta_Rv3594	-0.555	0.0
delta_Rv3717	-0.457	0.0
delta_Rv3811	-0.644	0.0
delta_Rv0954	-0.976	0.0
PonA1	0.06	0.0
EccD1_KO	-0.559	-1.47
EspI_KO	-2.025	-1.668
PE35_KO	-1.368	-1.706
PPE68_KO	0.25	-1.872
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	0.0
Rv1096ko	1.167	0.0
Rv3684ko	0.982	0.0
delta_otsA_trehalose	0.366	0.254