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. Author manuscript; available in PMC: 2018 Feb 3.
Published in final edited form as: J Proteome Res. 2016 Dec 2;16(2):609–618. doi: 10.1021/acs.jproteome.6b00698

Figure 2.

Figure 2

Summary of unique proteoforms and accession numbers identified at 1% FDR from 45 total RAW files. (A) Venn diagram for the total 393 unique accession numbers identified at a 1% protein-level FDR from 54 LC–MS runs. Note, ~80% of the proteins identified by medium/high experiments were not found in either of the two high/high modes of data acquisition. (B) Venn diagram of proteoforms identified at 1% FDR. Approximately 50% of identified proteoforms were shared between top-2 and AUTOPILOT high/high experiments, and low overlap was observed for the <30 kDa and 30–60 kDa portions of the fibroblast proteome interrogated here.