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 Rv2455c/-:

update plot	correlation	link to info on gene
Rv2454c/-	(cc=0.9569)	info on Rv2454c/-
Rv2461c/clpP1	(cc=0.7138)	info on Rv2461c/clpP1
Rv1540/-	(cc=0.7126)	info on Rv1540/-
Rv2393/che1	(cc=0.6661)	info on Rv2393/che1
Rv2847c/cysG	(cc=0.6049)	info on Rv2847c/cysG
Rv3215/entC	(cc=0.561)	info on Rv3215/entC
Rv2434c/-	(cc=0.5506)	info on Rv2434c/-
Rv1208/gpgS	(cc=0.5436)	info on Rv1208/gpgS
Rv3603c/-	(cc=0.5277)	info on Rv3603c/-
Rv1324/-	(cc=0.4928)	info on Rv1324/-

Correlation of Rv2455c/- with Rv1540/-

Normalized LFCs for Rv2455c/-:
(description and provenance of datasets)

	Rv2455c/-	Rv1540/-
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	1.234	0.0
Rifampicin4	0.0	-0.374
Ethambutol3	0.0	0.658
Meropenem3	0.0	1.418
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.825	0.123
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	0.285
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	0.445	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.362
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	-2.542	-2.215
delta_Rv3594	0.0	0.0
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.178	0.34
PonA1	0.159	0.783
EccD1_KO	0.0	0.0
EspI_KO	0.0	0.0
PE35_KO	1.105	1.978
PPE68_KO	0.841	0.442
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.437
glucAc	0.0	0.0
Rv0950ko	-0.38	-0.38
Rv1096ko	-0.38	0.0
Rv3684ko	0.0	0.377
delta_otsA_trehalose	-0.179	-0.111