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 Rv1457c/-:

update plot	correlation	link to info on gene
Rv2965c/kdtB	(cc=0.7364)	info on Rv2965c/kdtB
Rv0651/rplJ	(cc=0.7299)	info on Rv0651/rplJ
Rv1636/TB15.3	(cc=0.724)	info on Rv1636/TB15.3
Rv2202c/adoK	(cc=0.6741)	info on Rv2202c/adoK
Rv1458c/-	(cc=0.6697)	info on Rv1458c/-
Rv2603c/-	(cc=0.6045)	info on Rv2603c/-
Rv3645/-	(cc=0.5828)	info on Rv3645/-
Rv2904c/rplS	(cc=0.5588)	info on Rv2904c/rplS
Rv0066c/icd2	(cc=0.5495)	info on Rv0066c/icd2
Rv0701/rplC	(cc=0.5429)	info on Rv0701/rplC

Correlation of Rv1457c/- with Rv2603c/-

Normalized LFCs for Rv1457c/-:
(description and provenance of datasets)

	Rv1457c/-	Rv2603c/-
Fe_supp_jason_reseq	0.415	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	0.0	0.0
Rifampicin4	0.374	0.0
Ethambutol3	0.931	0.0
Meropenem3	0.315	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	-0.131	0.0
H37Rv_KO_MarP	1.249	-0.371
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	0.0	0.0
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.37	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	0.199	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	0.0	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	0.0
Rv1565c_day32	0.0	0.0
secA2_input	2.821	2.555
delta_Rv3594	-0.193	0.0
delta_Rv3717	-0.159	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.65	0.0
PonA1	-0.145	0.56
EccD1_KO	-0.793	0.0
EspI_KO	0.0	0.0
PE35_KO	-0.703	0.0
PPE68_KO	0.0	0.0
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.806	0.0
glucAc	0.0	0.0
Rv0950ko	0.0	0.0
Rv1096ko	0.0	-0.416
Rv3684ko	-0.861	0.413
delta_otsA_trehalose	0.564	0.0