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 Rv1322A/-

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

	Rv2461c/clpP1	Rv1322A/-
Fe_supp_jason_reseq	0.0	0.655
low_pH_jason_reseq	0.0	-0.033
NO_jason_reseq	0.0	0.205
B6_jason_reseq	0.0	-1.298
MHCII_jason_reseq	0.0	-0.02
Isoniazid02	0.0	-0.119
Rifampicin4	0.0	0.596
Ethambutol3	0.0	0.395
Meropenem3	0.0	1.712
Vancomycin16	0.0	0.69
Rv2680_day32	0.0	-0.28
H37Rv_KO_MarP	0.0	0.978
hypoxia_3wks	0.0	-1.284
hypoxia_6wks	0.288	-1.489
glycerol	0.0	0.29
cholesterol	0.0	1.049
AJ	0.0	0.269
Bibs02	0.0	0.427
Bibs02c	0.0	0.185
BL6	0.0	-0.402
BL6a	0.0	0.938
BXD01	0.0	0.426
BXD010	0.0	-1.573
BXD011	0.0	-0.189
BXD03	0.0	1.429
BXD04	0.0	-0.274
BXD05	0.0	-0.063
BXD06	0.0	0.849
BXD07	0.0	-0.021
BXD08	0.0	0.963
BXD09	0.0	-0.089
CAST	0.0	-0.511
CCcont	0.0	0.86
DS01	0.0	-0.479
DS02	0.0	-0.033
DS04	0.0	-1.949
DS0c	0.0	-0.173
GP01	0.0	-0.031
GP02	0.0	-0.268
GP0c	0.248	1.307
NOD	0.0	0.351
NZO	0.0	0.984
PWK	0.0	0.384
H37Rv_KO_CtpC	0.0	1.343
H37Rv_KO_CtpD	0.0	0.248
H37Rv_KO_Rv1272	0.0	1.575
H37Rv_KO_SugABC	0.0	-0.13
H37Rv_KO_MbtN	0.0	-0.332
Trans05	0.0	0.204
macrophage_unactivated	0.0	0.455
IL1	0.0	-0.528
Rapamycin	0.0	-1.04
Tcell	0.0	0.661
GMCSF	0.0	2.22
IFNab	0.0	-0.369
IFNg	0.0	-0.425
IFNg_GMCSF1	0.0	0.355
Rv1432_day32	0.0	-0.754
Rv1565c_day32	0.0	-0.66
secA2_input	-1.929	-2.555
delta_Rv3594	0.0	0.303
delta_Rv3717	0.0	-0.575
delta_Rv3811	0.0	-0.726
delta_Rv0954	0.0	1.012
PonA1	0.0	-0.192
EccD1_KO	0.0	0.322
EspI_KO	0.0	1.112
PE35_KO	0.0	1.199
PPE68_KO	0.0	0.483
glycerol2	0.0	1.135
lignocerate	0.0	1.622
oleate	0.0	0.432
phosphatidylcholine	0.0	1.036
acetate	0.63	1.746
glucAc	0.0	1.342
Rv0950ko	0.0	-0.09
Rv1096ko	0.0	-1.212
Rv3684ko	0.0	0.033
delta_otsA_trehalose	0.0	-0.621