Skip to main content

Table 1 Total spectra searched and identified from whole genome, GENCODE V7 transcript and protein searches

From: Whole human genome proteogenomic mapping for ENCODE cell line data: identifying protein-coding regions

Total spectra searched Databases (size) # of distinct spectra mapped (# of distinct spectra mapped when only best match considered) # of distinct peptides identified (# of distinct peptides when only best match considered) # of distinct genomic loci/proteins/transcripts identified (# of distinct loci/transcripts/proteins when only best match considered)
998570 whole genome (~3.2 GB) 62308 (62218) 13143 (13128) 16832 (16808)
998570 GENCODE V7 transcript (~200 MB) 111138 (110738) 24503 (24406) 21032 (20985)
998570 GENCODE V7 protein (~44 MB) 115164 (114618) 26591 (26472) 20051(20013)
  1. Results presented are at a 1% FDR. The bracketed numbers represent the number of identifications after comparing the results from the three searches and keeping only the best match.