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Overview of datasets and evaluations. We used entrapment searches on a deep proteome study as well as simulated data to assess the accuracy of FDR estimates of different protein group-level FDR estimation methods. We also evaluated the sensitivity of the methods on three databases with increasing levels of redundancy (SwissProt canonical, SwissProt+isoforms, and SwissProt+iso+TrEMBL) for the deep proteome study and the human section of ProteomicsDB. FDR, false discovery rate.
