De Novo Sequencing of Top-Down Tandem Mass Spectra: A Next Step towards Retrieving a Complete Protein Sequence
peer-reviewed · Proteomes · 2017
peer-reviewed · Proteomes · 2017. Kira Vyatkina. De novo sequencing of tandem (MS/MS) mass spectra represents the only way to determine the sequence of…
| Date | 2017-02-08 |
| Type | peer-reviewed |
| Venue | Proteomes |
| Publisher | MDPI AG |
| Contribution | algorithm |
| DOI | 10.3390/proteomes5010006 |
| Citations (OpenAlex) | 26 |
Abstract
De novo sequencing of tandem (MS/MS) mass spectra represents the only way to determine the sequence of proteins from organisms with unknown genomes, or the ones not directly inscribed in a genome-such as antibodies, or novel splice variants. Top-down mass spectrometry provides new opportunities for analyzing such proteins; however, retrieving a complete protein sequence from top-down MS/MS spectra still remains a distant goal. In this paper, we review the state-of-the-art on this subject, and enhance our previously developed Twister algorithm for de novo sequencing of peptides from top-down MS/MS spectra to derive longer sequence fragments of a target protein.
Methods and tools
- Top-down tandem spectrum de novo sequencing: De novo sequencing of top-down tandem mass spectra, aimed at the proteins no database can serve – organisms with unknown genomes, antibodies, novel splice variants – and at recovering a complete sequence rather than peptide-length fragments.
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