Extended Data Fig. 5: Localization benchmarking and experimental validation.
From: A proximity-dependent biotinylation map of a human cell
a, Percentage of genes localized to a previously known compartment for each specificity tier using our NMF and SAFE pipelines, compared with the HPA1 (www.proteinatlas.org) and the fractionation studies of Christoforou2 and Itzhak3. Specificity tiers were defined by binning GO:CC terms on the basis of their information content (Methods). Tier 1 terms are the most specific, and tier 5 the least specific. b, Percentage of preys localized to a previously known compartment relative to the number of baits they were detected with for NMF and SAFE, respectively. c, Percentage of preys localized to a previously known compartment relative to the average number of spectral counts they were seen with for NMF and SAFE. Preys were binned by spectral counts. The left tick mark for each data point indicates the lower bound for the bin (inclusive) and the right tick mark the upper bound (exclusive). d, Localization prediction validation strategy and examples. Confidence rankings are as defined in Fig. 2d. Representative immunofluorescence images are shown. NMF scores across the defined ranks, categories and compartments are displayed as seen on humancellmap.org with the highest NMF category corresponding to the localization prediction.
