Tandem Mass Spectrum Sequencing: An Alternative to Database Search Engines in Shotgun Proteomics
peer-reviewed · Advances in Experimental Medicine and Biology · 2016
peer-reviewed · Advances in Experimental Medicine and Biology · 2016. Thilo Muth et al. Protein identification via database searches has become the gold standard in mass spectrometry based shotgun…
| Date | 2016-12-15 |
| Type | peer-reviewed |
| Venue | Advances in Experimental Medicine and Biology |
| Publisher | Springer International Publishing |
| Contribution | review |
| DOI | 10.1007/978-3-319-41448-5_10 |
| Citations (OpenAlex) | 2 |
Abstract
Protein identification via database searches has become the gold standard in mass spectrometry based shotgun proteomics. However, as the quality of tandem mass spectra improves, direct mass spectrum sequencing gains interest as a database-independent alternative. In this chapter, the general principle of this so-called de novo sequencing is introduced along with pitfalls and challenges of the technique. The main tools available are presented with a focus on user friendly open source software which can be directly applied in everyday proteomic workflows.
Methods and tools
- Tandem mass spectrum sequencing (review): Book chapter presenting de novo sequencing as the alternative to database search engines in shotgun proteomics, covering its pitfalls and challenges and reviewing the main available tools.