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 Rv2461c/clpP1:

update plot	correlation	link to info on gene
Rv2454c/-	(cc=0.7951)	info on Rv2454c/-
Rv2455c/-	(cc=0.7138)	info on Rv2455c/-
Rv3215/entC	(cc=0.6483)	info on Rv3215/entC
Rv1540/-	(cc=0.6185)	info on Rv1540/-
Rv1350/fabG2	(cc=0.4394)	info on Rv1350/fabG2
Rv2309c/-	(cc=0.3922)	info on Rv2309c/-
Rv0584/-	(cc=0.3809)	info on Rv0584/-
Rv1767/-	(cc=0.3758)	info on Rv1767/-
Rv0816c/thiX	(cc=0.3741)	info on Rv0816c/thiX
Rv1322A/-	(cc=0.3733)	info on Rv1322A/-

Correlation of Rv2461c/clpP1 with Rv2454c/-

Normalized LFCs for Rv2461c/clpP1:
(description and provenance of datasets)

	Rv2461c/clpP1	Rv2454c/-
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	0.0	0.851
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	0.0	1.081
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.288	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	0.0	0.0
DS0c	0.0	0.0
GP01	0.0	0.099
GP02	0.0	0.0
GP0c	0.248	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	0.445
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	-1.929	-2.955
delta_Rv3594	0.0	0.0
delta_Rv3717	0.0	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	0.178
PonA1	0.0	0.159
EccD1_KO	0.0	0.0
EspI_KO	0.0	0.0
PE35_KO	0.0	0.767
PPE68_KO	0.0	0.442
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.63	0.229
glucAc	0.0	0.143
Rv0950ko	0.0	-0.38
Rv1096ko	0.0	-0.793
Rv3684ko	0.0	-0.413
delta_otsA_trehalose	0.0	-0.027