On peptidede novo sequencing: a new approach
peer-reviewed · Journal of Peptide Science · 2005
| Date | 2005-04-01 |
| Type | peer-reviewed |
| Venue | Journal of Peptide Science |
| Publisher | Wiley |
| Contribution | algorithm |
| DOI | 10.1002/psc.595 |
| Citations (OpenAlex) | 34 |
Abstract
A procedure is presented for the automatic determination of the amino acid sequence of peptides by processing data obtained from mass spectrometry analysis. This is a basic and relevant problem in the field of proteomics. Furthermore, it has an even higher conceptual and applicative interest in peptide research, as well as in other connected fields. The analysis does not rely on known protein databases, but on the computation of all amino acid sequences compatible with the given spectral data. By formulating a mathematical model for such combinatorial problems, the structural limitations of known methods are overcome, and efficient solution algorithms can be developed. The results are very encouraging both from the accuracy and computational points of view.
Methods and tools
- Bruni combinatorial de novo sequencing: Formulates de novo sequencing as a combinatorial problem and computes every amino-acid sequence compatible with the MS/MS data, without relying on a protein database.