Immunopeptidomics search engine comparison (PEAKS vs database engines)

benchmark

Immunopeptidomics search engine comparison (PEAKS vs database engines): benchmark. Compares the de novo-assisted PEAKS DB search with MaxQuant, Comet and MS-GF+ on HLA class I immunopeptidomics data and a synthetic peptide library. PEAKS reported…

Compares the de novo-assisted PEAKS DB search with MaxQuant, Comet and MS-GF+ on HLA class I immunopeptidomics data and a synthetic peptide library. PEAKS reported substantially more peptides, with a bias towards hydrophobic residues.

Kind	benchmark
Deep learning	no
Acquisition	DDA

Paper describing it

• The Choice of Search Engine Affects Sequencing Depth and HLA Class I Allele-Specific Peptide Repertoires (2021, Molecular & Cellular Proteomics, peer-reviewed)

Authors (9)

Robert Parker, Arun Tailor, Xu Peng, Annalisa Nicastri, Johannes Zerweck, Ulf Reimer, Holger Wenschuh, Karsten Schnatbaum, Nicola Ternette

Seen in the charts

• Models and the authors behind them

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