Ming Li
24 papers in the catalog · Canada, China
Ming Li: 24 papers in the catalog · Canada, China · Bioinformatics Solutions Inc., Central China Institute of Artificial Intelligence · Works on AI proteomics perspective, ALPS, DIANovo
Affiliations
- Bioinformatics Solutions Inc.
- Central China Institute of Artificial Intelligence
- Peng Cheng Laboratory
- University of Waterloo · David R. Cheriton School of Computer Science
- University of Waterloo · School of Computer Science
- University of Western Ontario · Department of Computer Science
Elsewhere
Papers
- High-accuracy glycan de novo prediction for N- and O-linked glycopeptides across multiple fragmentation techniques (2026, Nature Communications)
- AI proteomics: from protein identification to virtual cells (2026, Nature Methods)
- Zero-shot de novo peptide sequencing with open posttranslational modification discovery (2026, Nature Biotechnology)
- Mass spectrometry-based de novo sequencing reveals non-canonical neoantigens with antitumor efficacy in hepatocellular carcinoma (2026, JHEP Reports)
- 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)
- 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: powerful software for peptide de novo sequencing by tandem mass spectrometry (2003, Rapid Communications in Mass Spectrometry)
Methods and tools
AI proteomics perspective, ALPS, DIANovo, Deep-learning protein identification primer, DeepGlycan, DeepNovo, DeepNovo Peptidome, DeepNovo V2, DeepNovo-DIA, DeepNovoAA, GlycanFinder, GraphNovo, HCC non-canonical neoantigen discovery, Living proteomics benchmark, NovoBoard, PEAKS, PointNovo, PolySeq.AI, RNovA
Patents (4)
- US11573239B2 Methods and systems for de novo peptide sequencing using deep learning ↗ (Bioinformatics Solutions Inc., priority 2017-07-17, active)
- US11694769B2 Systems and methods for de novo peptide sequencing from data-independent acquisition using deep learning ↗ (Bioinformatics Solutions Inc., priority 2017-07-17, active)
- US20200243164A1 Systems and methods for patient-specific identification of neoantigens by de novo peptide sequencing for personalized immunotherapy ↗ (Bioinformatics Solutions Inc., priority 2019-01-30, abandoned)
- US11644470B2 Systems and methods for de novo peptide sequencing using deep learning and spectrum pairs ↗ (Bioinformatics Solutions Inc., priority 2019-04-15, active)
Patent families naming this author as an inventor. The link is made only where the same person is evident: they wrote a paper describing the patented method, or worked at the assignee.