Let me infuse this for you – A way to solve the first YPIC challenge
peer-reviewed · EuPA Open Proteomics · 2019
| Date | 2019-03-01 |
| Type | peer-reviewed |
| Venue | EuPA Open Proteomics |
| Publisher | Elsevier BV |
| Contribution | downstream-application |
| DOI | 10.1016/j.euprot.2019.07.007 |
| Citations (OpenAlex) | 0 |
Abstract
In a common proteomics analysis today, the origins of our sample in the vial are known and therefore a database dependent approach to identify the containing peptides can be used. The first YPIC challenge though provided us with 19 synthetic peptides, which together formed an English sentence. For the identification of these peptides, a de-novo approach was used, which brought us together with an internet search engine to the hidden sentence. But only having the sentence was not sufficient for us, we also wanted to identify as many as possible of the spectra in our data. Therefore, we created and refined a database approach from the de-novo method and finally could identify the peptide-sentence with a good overlap.
Methods and tools
- First YPIC challenge sentence decoding (infusion): De novo sequencing of 19 synthetic peptides from the first YPIC challenge recovered the hidden English sentence, later refined with a database approach.