AuDeNS: A tool for automatic De Novo peptide sequencing
preprint · Repository for Publications and Research Data (ETH Zurich) · 2002
| Date | 2002-01-01 |
| Type | preprint |
| Venue | Repository for Publications and Research Data (ETH Zurich) |
| Contribution | algorithm |
| DOI | 10.3929/ethz-a-006665707 |
| Citations (OpenAlex) | 9 |
Peer-reviewed version: AUDENS: A Tool for Automated Peptide de Novo Sequencing (2005-10-01, Journal of Proteome Research)
Abstract
We have developed and implemented a framework for de novo sequencing of peptides using tandem mass spectrometry data. It first cleans the input spectrum with a number of data cleaning algorithms (“grass mowers”), followed by a sequencing algorithm that is a modifica tion of a dynamic programming algorithm introduced in [CKT00]. In first experiments, our prototype performs well (but not better) in comparison with Sequest, a frequently used software for peptide identification with database–lookup, and Lutefisk, a de novo peptide identification tool. In this paper, we present first results in the development of an efficient de novo sequencing tool.
Methods and tools
- AUDENS: Open-source automated de novo sequencing tool with preprocessing and dynamic programming over MS/MS spectra.