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 Rv0584/-

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

	Rv2461c/clpP1	Rv0584/-
Fe_supp_jason_reseq	0.0	-0.298
low_pH_jason_reseq	0.0	-0.043
NO_jason_reseq	0.0	0.557
B6_jason_reseq	0.0	0.283
MHCII_jason_reseq	0.0	-0.013
Isoniazid02	0.0	-0.047
Rifampicin4	0.0	0.027
Ethambutol3	0.0	1.254
Meropenem3	0.0	-0.131
Vancomycin16	0.0	0.321
Rv2680_day32	0.0	0.102
H37Rv_KO_MarP	0.0	-0.037
hypoxia_3wks	0.0	-0.092
hypoxia_6wks	0.288	0.161
glycerol	0.0	0.0
cholesterol	0.0	-0.1
AJ	0.0	0.187
Bibs02	0.0	0.015
Bibs02c	0.0	-0.018
BL6	0.0	0.41
BL6a	0.0	0.278
BXD01	0.0	0.361
BXD010	0.0	0.412
BXD011	0.0	0.345
BXD03	0.0	0.033
BXD04	0.0	0.174
BXD05	0.0	0.189
BXD06	0.0	0.461
BXD07	0.0	0.428
BXD08	0.0	0.253
BXD09	0.0	0.443
CAST	0.0	0.29
CCcont	0.0	0.326
DS01	0.0	0.19
DS02	0.0	-0.036
DS04	0.0	-0.049
DS0c	0.0	0.273
GP01	0.0	0.261
GP02	0.0	-0.007
GP0c	0.248	-0.25
NOD	0.0	0.316
NZO	0.0	0.098
PWK	0.0	0.388
H37Rv_KO_CtpC	0.0	-0.395
H37Rv_KO_CtpD	0.0	-0.122
H37Rv_KO_Rv1272	0.0	0.364
H37Rv_KO_SugABC	0.0	0.517
H37Rv_KO_MbtN	0.0	0.411
Trans05	0.0	0.404
macrophage_unactivated	0.0	0.366
IL1	0.0	0.205
Rapamycin	0.0	0.387
Tcell	0.0	0.319
GMCSF	0.0	0.404
IFNab	0.0	0.209
IFNg	0.0	0.69
IFNg_GMCSF1	0.0	0.757
Rv1432_day32	0.0	0.372
Rv1565c_day32	0.0	0.311
secA2_input	-1.929	-0.881
delta_Rv3594	0.0	-0.021
delta_Rv3717	0.0	-0.142
delta_Rv3811	0.0	-0.021
delta_Rv0954	0.0	0.168
PonA1	0.0	0.193
EccD1_KO	0.0	0.0
EspI_KO	0.0	0.362
PE35_KO	0.0	0.741
PPE68_KO	0.0	0.595
glycerol2	0.0	0.179
lignocerate	0.0	0.623
oleate	0.0	-0.489
phosphatidylcholine	0.0	0.311
acetate	0.63	0.535
glucAc	0.0	0.668
Rv0950ko	0.0	-0.317
Rv1096ko	0.0	0.1
Rv3684ko	0.0	-0.111
delta_otsA_trehalose	0.0	0.256