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 Rv2309c/-

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

	Rv2461c/clpP1	Rv2309c/-
Fe_supp_jason_reseq	0.0	-0.283
low_pH_jason_reseq	0.0	0.012
NO_jason_reseq	0.0	-0.037
B6_jason_reseq	0.0	-0.905
MHCII_jason_reseq	0.0	-0.575
Isoniazid02	0.0	1.285
Rifampicin4	0.0	0.1
Ethambutol3	0.0	0.689
Meropenem3	0.0	1.666
Vancomycin16	0.0	-0.204
Rv2680_day32	0.0	-0.177
H37Rv_KO_MarP	0.0	0.213
hypoxia_3wks	0.0	-0.542
hypoxia_6wks	0.288	-0.509
glycerol	0.0	0.647
cholesterol	0.0	0.825
AJ	0.0	0.225
Bibs02	0.0	-0.26
Bibs02c	0.0	1.77
BL6	0.0	-0.674
BL6a	0.0	1.356
BXD01	0.0	-0.052
BXD010	0.0	0.639
BXD011	0.0	0.159
BXD03	0.0	-0.121
BXD04	0.0	0.331
BXD05	0.0	0.584
BXD06	0.0	0.372
BXD07	0.0	-0.089
BXD08	0.0	-0.213
BXD09	0.0	0.358
CAST	0.0	0.976
CCcont	0.0	-0.048
DS01	0.0	0.144
DS02	0.0	0.646
DS04	0.0	1.06
DS0c	0.0	0.286
GP01	0.0	0.521
GP02	0.0	0.0
GP0c	0.248	0.942
NOD	0.0	0.296
NZO	0.0	0.409
PWK	0.0	0.693
H37Rv_KO_CtpC	0.0	1.385
H37Rv_KO_CtpD	0.0	0.227
H37Rv_KO_Rv1272	0.0	1.217
H37Rv_KO_SugABC	0.0	-1.36
H37Rv_KO_MbtN	0.0	0.514
Trans05	0.0	0.639
macrophage_unactivated	0.0	-0.701
IL1	0.0	0.128
Rapamycin	0.0	0.62
Tcell	0.0	-0.29
GMCSF	0.0	-0.177
IFNab	0.0	0.284
IFNg	0.0	0.198
IFNg_GMCSF1	0.0	-0.104
Rv1432_day32	0.0	1.304
Rv1565c_day32	0.0	-1.243
secA2_input	-1.929	-2.159
delta_Rv3594	0.0	-0.28
delta_Rv3717	0.0	-0.732
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	-0.62
PonA1	0.0	-0.81
EccD1_KO	0.0	0.493
EspI_KO	0.0	-0.245
PE35_KO	0.0	0.359
PPE68_KO	0.0	0.304
glycerol2	0.0	0.535
lignocerate	0.0	0.604
oleate	0.0	0.13
phosphatidylcholine	0.0	0.585
acetate	0.63	0.933
glucAc	0.0	0.932
Rv0950ko	0.0	0.522
Rv1096ko	0.0	-0.344
Rv3684ko	0.0	1.038
delta_otsA_trehalose	0.0	-0.75