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 Rv3266c/rmlD:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2697c/dut	(cc=0.5731)	info on Rv2697c/dut
Rv2838c/rbfA	(cc=0.4877)	info on Rv2838c/rbfA
Rv1015c/rplY	(cc=0.4757)	info on Rv1015c/rplY
Rv1957/-	(cc=0.4015)	info on Rv1957/-
Rv0813c/-	(cc=0.3997)	info on Rv0813c/-
Rv0004/-	(cc=0.397)	info on Rv0004/-
Rv3764c/tcrY	(cc=0.3918)	info on Rv3764c/tcrY
Rv0710/rpsQ	(cc=0.3915)	info on Rv0710/rpsQ
Rv1423/whiA	(cc=0.3596)	info on Rv1423/whiA
Rv0862c/-	(cc=0.3408)	info on Rv0862c/-

Correlation of Rv3266c/rmlD with Rv2697c/dut

Normalized LFCs for Rv3266c/rmlD:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3266c/rmlD	Rv2697c/dut
Fe_supp_jason_reseq	0.0	0.766
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	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.0	0.0
Meropenem3	0.0	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.178	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	0.133
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	0.0	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	0.0
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	-0.923	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.412	0.116
delta_Rv3594	0.0	1.53
delta_Rv3717	2.326	2.079
delta_Rv3811	0.0	0.97
delta_Rv0954	0.0	-0.627
PonA1	0.159	-0.123
EccD1_KO	0.454	0.73
EspI_KO	0.394	-0.75
PE35_KO	0.0	-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	0.0
Rv1096ko	0.0	0.0
Rv3684ko	0.452	0.861
delta_otsA_trehalose	0.0	0.0