Table 1.

Data sets used and method for calculating likelihood values

Data set	Rationale	Assignment of Likelihood Values: P(B|A)	Noise Threshold
Mouse mpkCCD transcriptome	The ability of a DUB to deubiquitinate plasma membrane transporters depends on whether or not it is expressed in collecting duct cells.	complements of minimal Bayes' factors (Z* = value/noise)	0.4
Mouse mpkCCD proteome	The ability of a DUB to deubiquitinate plasma membrane transporters depends on whether or not it is expressed in collecting duct cells.	complements of minimal Bayes' factors (Z* = value/noise)	26,251 (10th percentile value)
Annotated subcellular localization from Uniprot protein records	The ability of a DUB to deubiquitinate plasma membrane transporters depends on whether or not it is expressed in the same subcellular compartment.	if “cytoplasm,” “cytosol,” “lysosome,” “endosome,” “Golgi,” P(B|A) = 0.95; if not, P(B|A) = 0.1; if no annotation, P(B|A) = 0.5	none
Subcellular colocalization with plasma membrane proteins based on dot products of DUBs with the Na-K-ATPase (Atp1a1) and AQP2	The ability of a DUB to deubiquitinate plasma membrane transporters depends on whether or not it is expressed in the same subcellular compartment.	complements of minimum Bayes' factors = 1 – exp(–[Z*]2/2), for each DUB where Z* is the ratio of each value to the intrinsic noise in the measurement	0.05
CCD transcriptome from native rat	The ability of a DUB to deubiquitinate plasma membrane transporters depends on whether or not it is expressed in collecting duct cells.	complements of minimum Bayes' factors = 1 – exp(–[Z*]2/2), for each DUB where Z* is the ratio of each value to the intrinsic noise in the measurement	RPKM = 1

DUB, deubiquitylating enzyme; AQP2, aquaporin-2; CCD, cortical collecting duct; RPKM, reads per kilobase of transcript per million mapped reads.