Skip to main content
. 2020 Mar 16;16(3):e9170. doi: 10.15252/msb.20199170

Figure EV1. Quantitative comparison of results acquired with different protein FASTA DB.

Figure EV1

  • A
    Detectability of unique peptides translated from very low‐abundant transcripts (blue dots) expressed below a FPKM of 1 (red line). The mRNA data were analyzed using the FPKM > 0 FASTA DB in fourteen HeLa DIA files.
  • B, C
    Average log2 FPKM distribution of transcripts included in the FPKM > 0 (B) and FPKM > 1 (C) databases.
  • D, E
    Number of unique (proteotypic) peptides (D) and peptide precursors (E) quantified using FASTA DB with different FPKM cutoffs.
  • F
    Average number of alternative splicing isoforms (transcript IDs) per gene ID included in the FASTA DB.
  • G
    Average number of alternative splicing isoforms per gene ID quantified using indicated FASTA DB.
  • H–J
    Overlap between peptide precursor IDs quantified using indicated FASTA DB.
Data information: (D, E, H–J) Three HeLa 1 pSILAC samples were analyzed using libraries created from five HeLa 1 raw files and different FASTA DB. The Swiss‐Prot canonical and isoforms sequence database was downloaded from UniProtKB.