A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome
peer-reviewed · Journal of Proteome Research · 2010
peer-reviewed · Journal of Proteome Research · 2010. Gerben Menschaert et al. Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination…
| Date | 2010-02-05 |
| Type | peer-reviewed |
| Venue | Journal of Proteome Research |
| Publisher | American Chemical Society (ACS) |
| Contribution | downstream-application |
| DOI | 10.1021/pr900885k |
| Citations (OpenAlex) | 38 |
| Venue 2-year citedness | 3.83 |
Abstract
Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination of high performance liquid chromatography, mass spectrometry, and bioinformatics tools such as database search engines are commonly used to perform the analysis. We report a methodology based on a database system holding the completed translated genome, whereby de novo sequencing and genome-wide database searching are combined. The methodology was applied to the sea urchin neuropeptidome resulting in a 30% increase in identification rate.
Methods and tools
- Sea urchin neuropeptidome hybrid de novo search: Combines de novo sequencing with search of a translated genome to identify sea urchin neuropeptides, increasing the identification rate by 30%.