ALPS
post-processor · Sequence assembly
ALPS: post-processor · Sequence assembly. Assembles de novo sequenced peptides and their per-residue confidence scores into a de Bruijn graph to reconstruct complete monoclonal antibody heavy and light chains…
Assembles de novo sequenced peptides and their per-residue confidence scores into a de Bruijn graph to reconstruct complete monoclonal antibody heavy and light chains without a template.
| Kind | post-processor |
| Deep learning | no |
| Acquisition | DDA |
| Family | Sequence assembly |
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.
Deposited
- Monoclonal antibody de novo assembly (as deposited)
Paper describing it
- Complete De Novo Assembly of Monoclonal Antibody Sequences (2016, Scientific Reports, peer-reviewed)
Papers using it (3)
Applications and evaluations that ran this method. They are not counted among its authors below.
- Sequencing of Polyclonal Antibodies by Integrating Intact Mass, Middle–Down, and De Novo Bottom–Up Mass Spectrometry (2025, Molecular & Cellular Proteomics, peer-reviewed)
- Systematic benchmarking of mass spectrometry-based antibody sequencing reveals methodological biases (2025, Cell Systems, peer-reviewed)
- Systematic benchmarking of mass spectrometry-based antibody sequencing reveals methodological biases (2024, bioRxiv, preprint)