InstaNovo-P
algorithm · Transformer (AR)
InstaNovo-P: algorithm · Transformer (AR). Phosphoproteomics
Phosphoproteomics
| Kind | algorithm |
| Deep learning | yes |
| Acquisition | DDA |
| Family | Transformer (AR) |
Code
Live stars, open issues and last-push figures are on the Code activity chart.
Data
What the papers describing this method trained it on and reported its results on, as each paper states it. A version is named only where the paper names one.
Trained on
- HeLa proteome of 12,250 protein-coding genes (as deposited) · 2025 preprint, 2026 peer-reviewed
- InstaNovo-P fine-tuning data (as published) · 2025 preprint, 2026 peer-reviewed
- Modulating the selectivity of affinity absorbents to multi-phosphopeptides by a novel competitive substitution strategy (as deposited) · 2025 preprint, 2026 peer-reviewed
- PeptideShaker - PeptideShaker is a user friendly tool for shotgun proteomic data interpretation and reprocessing. (as deposited) · 2025 preprint, 2026 peer-reviewed
- Reproducibility of label-free single-shot phosphoproteomics applied to CRC cell lines (as deposited) · 2025 preprint, 2026 peer-reviewed
- Robust, sensitive and automated phosphopeptide enrichment optimized for low sample amounts applied to primary hippocampa (as deposited) · 2025 preprint, 2026 peer-reviewed
- System-level analysis of cancer and stomal cell specific proteomes reveals extensive reprogramming of phosphorylation ne (as deposited) · 2025 preprint, 2026 peer-reviewed
- Ultra-deep human phosphoproteome reveals different regulatory nature of Tyr and Ser/Thr-based signaling (as deposited) · 2025 preprint, 2026 peer-reviewed
Evaluated on
- InstaNovo-P FGFR2 phosphoproteomics (as deposited) · 2025 preprint, 2026 peer-reviewed
- InstaNovo-P fine-tuning data (as published) · 2025 preprint, 2026 peer-reviewed
- ProteomeTools (21-PTM subset) · 2025 preprint, 2026 peer-reviewed
- ProteomeTools (all-confidence (InstaNovo)) · 2025 preprint, 2026 peer-reviewed
Deposited
- InstaNovo-P fine-tuning data (as published) · 2025 preprint, 2026 peer-reviewed
- InstaNovo-P: A de novo peptide sequencing model for phosphoproteomics (as deposited) · 2025 preprint, 2026 peer-reviewed
Also used, purpose not recorded
- ProteomeTools (Parts I-III) · 2025 preprint, 2026 peer-reviewed
Papers describing it (2)
- InstaNovo-P: A de novo peptide sequencing model for phosphoproteomics (2025, bioRxiv, preprint)
- InstaNovo-P: a de novo peptide sequencing model for phosphoproteomics (2026, Nature Communications, peer-reviewed)