### Abstract

The tandem mass spectrometry fragments a large number of molecules of the same peptide sequence into charged prefix and suffix subsequences, and then measures mass/charge ratios of these ions. The de novo peptide sequencing problem is to reconstruct the peptide sequence from a given tandem mass spectral data of k ions. By implicitly transforming the spectral data into an NC-spectrum graph G = (V, E) where |V| = 2k+2, we can solve this problem in O(|V|+|E|) time and O(|V|) space using dynamic programming. Our approach can be further used to discover a modified amino acid in O(|V||E|) time and to analyze data with other types of noise in O(|V||E|) time. Our algorithms have been implemented and tested on actual experimental data.

Original language | English (US) |
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Title of host publication | Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms |

Publisher | SIAM |

Pages | 389-398 |

Number of pages | 10 |

State | Published - Jan 1 2000 |

Event | 11th Annual ACM-SIAM Symposium on Discrete Algorithms - San Francisco, CA, USA Duration: Jan 9 2000 → Jan 11 2000 |

### Other

Other | 11th Annual ACM-SIAM Symposium on Discrete Algorithms |
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City | San Francisco, CA, USA |

Period | 1/9/00 → 1/11/00 |

### ASJC Scopus subject areas

- Software
- Mathematics(all)

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## Cite this

*Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms*(pp. 389-398). SIAM.