Glycoproteomics
2 workflows · 2025
Glycoproteomics: Glycopeptides, where the glycan has to be accounted for before the peptide backbone can be read. 2 catalogued workflows and 2 papers.
Glycopeptides, where the glycan has to be accounted for before the peptide backbone can be read.
| Workflows | 2 |
| Papers | 2 |
| Authors | 12 |
| Active | 2025-01-22 to 2025-06-12 |
Workflows (2)
- Deglycosylation-assisted glycoprotein de novo sequencing (2025): Integrative strategy for glycoprotein primary structure: enzymatic N-/O- deglycosylation to open up sequence coverage, EThcD to yield long peptides, PEAKS AB de novo sequencing to assemble the backbone, then glycosylation site and glycan characterisation on top. Demonstrated on Etanercept and three TNFR:Fc-fusion biologics of unknown sequence.
- InstaNovo glycopeptide fine-tuning (2025): Adaptation of InstaNovo, a transformer de novo peptide sequencer, to glycoproteomics by fine-tuning on glycopeptide spectra. Learning from glyco spectra is measurable but limited, and every fine-tuning setting suffers catastrophic forgetting, losing accuracy on peptides the base model handled well; fine-tuning on unfiltered spectra that partly overlap the original training set gives the strongest learning signal but does not remove the effect. PCA of spectrum embeddings shows a large domain shift that explains the difficulty, and the study argues for treating overlapping glyco spectra as informative examples rather than outliers to discard, alongside multi-task and contrastive objectives and embedding transformations that pull glyco spectra toward the original distribution.
Papers (2)
- Decoding Protein Glycosylation by an Integrative Mass Spectrometry-Based De Novo Sequencing Strategy (2025, JACS Au, peer-reviewed)
- Advancing De Novo Glycopeptide Sequencing with InstaNovo in Glycoproteomics (2025, thesis)
Sequencing tools these papers used
Where the work happened
China, South Africa, UK