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Updated: Jun 20, 2026

Mass Spectrometry-Based Proteomics Analyses Using the OpenProt Database to Unveil Novel Proteins Translated from Non-Canonical Open Reading Frames
Published on: April 11, 2019
Comparison of novel decoy database designs for optimizing protein identification searches using ABRF sPRG2006
Luca Blanco1, Jennifer A Mead, Conrad Bessant
1Bioinformatics Group, Building 63, Cranfield University, Cranfield, Bedfordshire, United Kingdom MK43 OAL.
Abstract:
Decoy database searches are used to filter out false positive protein identifications derived from search engines, but there is no consensus about which decoy is "the best". We evaluate nine different decoy designs using public data sets from samples of known composition. Statistically significant performance differences were found, but no single decoy stood out among the best performers. Ultimately, we recommend peptide level reverse decoys searched independently from the target.
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