robbin
Postdoc @VIBLifeSciences, @UGent, and @JNJInnovMedEMEA in the @CompOmics group. Interested in Metabolomics, Proteomics, and ML.
- Reposted by robbinOur latest paper introduces new methods for improving peptide retention time predictions in proteomics, incorporating chemical structure information to better handle unseen modifications. Read all about it in our preprint by👉 doi.org/10.1101/2025... #Proteomics #AI #MachineLearning
- Reposted by robbinExciting news: Preprint on the limitations of current de novo peptide sequencing models on dealing with sequence ambiguity is now out! It focuses on how current models deal with sequence ambiguity, and when and where they go wrong. Check it out here: www.biorxiv.org/content/10.1...
- Reposted by robbinThanks (especially as I was so vague). It feels like a lot of scripting for sure. After chatting with Magnus, even working through some tutorials like those collabs by @robbinbouwmeester.bsky.social on ProteomicsML wouldn't be a bad idea.
- Reposted by robbinFrom PTMs to proteins, from metadata to metaproteomics. CompOmics has got you covered at #EuPA2025!
- Reposted by robbinAnd you get the cutest mascotte octopus. His name is Mark! He'll guide you Clippy-wise through your analyses 🙌
- Reposted by robbinMLMarker is live! This ML-tool predicts tissue similarity and uncovers biomarkers from your proteomics data. It was trained on public data of healthy human tissues. Preprint & app: www.biorxiv.org/content/10.1... Let's chat at #EuPA2025 - Award session (Wednesday) & poster session (Thursday)!
- Reposted by robbinWe recently released a tool to help you with this. 🚀 Say hello to pridepy — your Python for grabbing data from the @pride-ebi.bsky.social! To search metadata or download files via FTP, Aspera, Globus, or S3, and is perfect for bioinfo workflows. Check it out 👉 github.com/PRIDE-Archiv...
- August must be PRIDE @pride-ebi.bsky.social month for proteomics researchers 📊🧬 Why else would download rates spike like it’s a secret mass spectrometry ritual? 🧙 Im preparing the team for next August. 🧑💻🏝️
- New in DeepLC! Ability to deal with wild, weird, and wobbly LC setups or peptide modifications. This ability is possible with transfer learning; where only a minimal amount of training peptides are needed for accurate retention time predictions. www.biorxiv.org/content/10.1...
- Reposted by robbinFantastic review with an unusual history, growing out of a passionate blog post by @willfondrie.com (willfondrie.com/2024/10/the-...), resulting from a storm (in our teacup) on X during @hupo-org.bsky.social 2024. Great teamwork, authors! pubs.acs.org/doi/10.1021/...
- Reposted by robbinClassification of Collagens via Peptide Ambiguation, in a Paleoproteomic LC-MS/MS-Based Taxonomic Pipeline #JProteomeRes pubs.acs.org/doi/10.1021/...
- Reposted by robbinMS2Rescore found its way into #ProteomeDiscoverer 🥳 At least, somewhat, through #MascotServer. Thanks for the implementation and for the nice blog post, @matrixscience.bsky.social! www.matrixscience.com/blog/using-m...
- Reposted by robbin🚀 New preprint alert! We've improved IM2Deep for accurate peptide collisional cross-section (CCS) prediction, even for peptides exhibiting multiple conformations in the gas phase! 🎯 Check it out here: www.biorxiv.org/content/10.1...
- Reposted by robbinDIA-NN 2.0 is released! We consider it the biggest step forward in the history of DIA-NN. On modern LC-MS almost all identifications are now peptidoform-confident, with major improvements e.g. for phospho. Some other cool things too: github.com/vdemichev/Di...
- The end of the year always comes with many 3D print requests. Hope the soon to be PhD will enjoy this ornament :)
- Reposted by robbinRecently, We saw a discussion on the role of open-source in proteomics. Here, experienced developers & researchers maintaining OS tools for years shared this comment to guide newcomers in the field about OS and its role in the field. 💻 #Proteomics #OpenSource chemrxiv.org/engage/chemr...
- Reposted by robbinThis was a ton of fun to write with @ypriverol.bsky.social and all of the other authors 👏 Our goal was to share a vision of #OSS #proteomics for us to build toward, and propose some ways to get there 🚀 I’m blown away by how many folks contributed and how much it evolved beyond just my voice 🙌
- Recently, We saw a discussion on the role of open-source in proteomics. Here, experienced developers & researchers maintaining OS tools for years shared this comment to guide newcomers in the field about OS and its role in the field. 💻 #Proteomics #OpenSource chemrxiv.org/engage/chemr...
- Reposted by robbinToday, @robbedevr.bsky.social and @carojachmann.bsky.social presented their work on #IM2Deep and #ProteoBench at #BePAc2024. Learn more at doi.org/10.1101/2024... and proteobench.readthedocs.io.
