Lei Xin
24 papers in the catalog · Canada
Lei Xin: 24 papers in the catalog · Canada · Bioinformatics Solutions (Canada), Bioinformatics Solutions Inc. · Works on ALPS, DIANovo, DIAVariant
Affiliations
Elsewhere
Papers
- 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))
- Sequencing of Polyclonal Antibodies by Integrating Intact Mass, Middle–Down, and De Novo Bottom–Up Mass Spectrometry (2025, Molecular & Cellular Proteomics)
- Zero-Shot De Novo Peptide Sequencing with Open Post-Translational Modification Discovery (2025, Research Square)
- De Novo sequencing-assisted homology search for DIA data analysis enables low abundance peptide variants discovery (2025, bioRxiv)
- 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)
- 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)
- Discovering and Validating Neoantigens by Mass Spectrometry-based Immunopeptidomics and Deep Learning (2022, bioRxiv)
- A streamlined platform for analyzing tera-scale DDA and DIA mass spectrometry data enables highly sensitive immunopeptidomics (2022, Nature Communications)
- 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)
- 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, Proceedings of the National Academy of Sciences)
- Complete De Novo Assembly of Monoclonal Antibody Sequences (2016, Scientific Reports)
- PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification (2012, Molecular & Cellular Proteomics)
- Integrating de Novo Sequencing and Database Search for Peptide Identification (2012, Europe PMC (PubMed Central))
- Better score function for peptide identification with ETD MS/MS spectra (2010, BMC Bioinformatics)
Methods and tools
ALPS, DIANovo, DIAVariant, Deep-learning protein identification primer, DeepNovo, DeepNovo Peptidome, DeepNovo V2, DeepNovo-DIA, DeepNovoAA, GlycanFinder, GraphNovo, Living proteomics benchmark, NovoBoard, PEAKS, PEAKS DB, PointNovo, PolySeq.AI, RNovA