University of Western Ontario
London, Canada · 12 authors
University of Western Ontario (London, Canada): 12 authors and 35 papers in the de novo peptide sequencing catalog.
Departments
- Department of Biochemistry
- Department of Computer Science
Papers (35)
- Spectra Fragment-Ion and Amino Acid Probability Prediction for Peptide Sequencing (2026)
- AI proteomics: from protein identification to virtual cells (2026, Nature Methods)
- Tandem Mass Spectra Representation Design for Transformer-Based De Novo Peptide Sequencing (2026)
- Zero-shot de novo peptide sequencing with open posttranslational modification discovery (2026, Nature Biotechnology)
- A living proteomics benchmark for comprehensive evaluation of deep learning-based de novo peptide sequencing tools (2026, Nature Methods (Registered Report))
- Zero-Shot De Novo Peptide Sequencing with Open Post-Translational Modification Discovery (2025, Research Square)
- An algorithm for peptide de novo sequencing from a group of SILAC labeled MS/MS spectra (2025, Journal of Bioinformatics and Computational Biology)
- Disentangling the Complex Multiplexed DIA Spectra in De Novo Peptide Sequencing (2024, arXiv)
- NovoBoard: A Comprehensive Framework for Evaluating the False Discovery Rate and Accuracy of De Novo Peptide Sequencing (2024, Molecular & Cellular Proteomics)
- De novo protein sequencing of antibodies for identification of neutralizing antibodies in human plasma post SARS-CoV-2 vaccination (2024, Nature Communications)
- NovoBoard: a comprehensive framework for evaluating the false discovery rate and accuracy of de novo peptide sequencing (2024, bioRxiv)
- A complete mass spectrometry-based immunopeptidomics pipeline for neoantigen identification and validation (2023, Research Square)
- Mitigating the missing-fragmentation problem in de novo peptide sequencing with a two-stage graph-based deep learning model (2023, Nature Machine Intelligence)
- Glycopeptide database search and de novo sequencing with PEAKS GlycanFinder enable highly sensitive glycoproteomics (2023, Nature Communications)
- DpNovo: A DEEP LEARNING MODEL COMBINED WITH DYNAMIC PROGRAMMING FOR DE NOVO PEPTIDE SEQUENCING (2023)
- PaSER Novor: Real-time de novo sequencing for 4D-Proteomics applications (2023)
- De novo sequencing of multiple tandem mass spectra of peptide containing SILAC labeling (2023)
- Computationally instrument-resolution-independent de novo peptide sequencing for high-resolution devices (2021, Nature Machine Intelligence)
- Personalized deep learning of individual immunopeptidomes to identify neoantigens for cancer vaccines (2020, Nature Machine Intelligence)
- Discrimination of Leucine and Isoleucine in De Novo peptide sequencing using deep neural networks (2020)
- Personalized deep learning of individual immunopeptidomes to identify neoantigens for cancer vaccines (2019, bioRxiv)
- DeepNovoV2: Better de novo peptide sequencing with deep learning (2019, arXiv)
- Deep learning enables de novo peptide sequencing from data-independent-acquisition mass spectrometry (2018, Nature Methods)
- Protein identification with deep learning: from abc to xyz (2017, arXiv)
- De novo peptide sequencing by deep learning (2017, PNAS)
- Spectra library assisted de novo peptide sequencing for HCD and ETD spectra pairs (2016, BMC Bioinformatics)
- De novo peptide sequencing using CID and HCD spectra pairs (2016, Proteomics)
- Recent Developments in Computational Methods for De Novo Peptide Sequencing from Tandem Mass Spectrometry (MS/MS) (2015, Protein & Peptide Letters)
- Novor: Real-Time Peptide de Novo Sequencing Software (2015, Journal of the American Society for Mass Spectrometry)
- PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification (2012, Molecular & Cellular Proteomics)
- De Novo Sequencing and Homology Searching (2012, Molecular & Cellular Proteomics)
- ADEPTS: Advanced peptide de novo sequencing with a pair of tandem mass spectra (2010, Journal of Bioinformatics and Computational Biology)
- SPIDER: software for protein identification from sequence tags with de novo sequencing error (2005, Journal of Bioinformatics and Computational Biology)
- An effective algorithm for peptide de novo sequencing from MS/MS spectra (2005, Journal of Computer and System Sciences)
- PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry (2003, Rapid Communications in Mass Spectrometry)