Thilo Muth
Group Leader and Adjunct Professor 🧑🏫 | Public Health | Data Engineering & Visualization | 🧬 Bioinformatics & 📈 Mass Spec Enthusiast | 📍 Berlin | Passionate About Collaboration and Open Science 🔬✨
- Reposted by Thilo Muth[Not loaded yet]
- Preprint: Accurate de novo sequencing of the modified proteome with OmniNovo arxiv.org/abs/2512.12272
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo MuthSuper excited to have this paper out. We developed a complex set of ground truth samples to test more than 110 statistical approaches for differential #metaproteomics We can now give clear guidance on what tests perform well. Thank you Tjorven Hinzke and @benoitkunath.bsky.social for the leadership
- Reposted by Thilo Muth[Not loaded yet]
- Preprint: Reflection Pretraining Enables Token-Level Self-Correction in Biological Sequence Models arxiv.org/abs/2512.20954
- Modanovo: A Unified Model for Post-Translational Modification-Aware de Novo Sequencing Using Experimental Spectra from In Vivo and Synthetic Peptides - Molecular & Cellular Proteomics www.mcponline.org/article/S153...
- Reposted by Thilo MuthThe solution is right above us. Solar panels on existing buildings, car parks, and along highways generate clean power without sacrificing farmland or wild spaces. Let's use our built world first. #Renewables #Innovation
- HDSE-MS: Tandem Mass Spectrum Prediction for Small Molecules via Hierarchical Distance Structural Encoding | Analytical Chemistry pubs.acs.org/doi/10.1021/...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo MuthCannot hide my joy, relief, excitement being able to share the outcome of persevering (to say the least) collaborative work. So... the MS glyco(proteomics) guidelines are published!! www.mcponline.org/article/S153... Many thanks to @beilstein-institut.bsky.social @glycosmos.bsky.social @sib.swiss
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- ProteomeXchange consortium in 2026: making proteomics data FAIR url: academic.oup.com/nar/article/...
- Reposted by Thilo MuthOn the event of James Watson's death, I highly recommend this 2023 commentary from @matthewcobb.bsky.social and Nathaniel Comfort with crucial new insights into the discovery of the double helix. (And also check out Cobb's brand new biography of Francis Crick) www.nature.com/articles/d41...
- Reposted by Thilo MuthI think about this post every day 🧪
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth🧬 Thrilled to share our latest paper in @natmicrobiol.nature.com 📄 A collaboration to give the Flaviviridae (home to Zika, Dengue & HCV) a much-needed taxonomic re-think. Our at-scale AI structure prediction gave a complementary perspective on viral evolution. www.nature.com/articles/s41...
- Reposted by Thilo MuthIn a Consensus Statement in Nature Microbiology, a consortium of #microbiome scientists discusses current sequencing data sharing policies and proposes the use of a Data Reuse Information tag to promote equitable and collaborative data sharing. go.nature.com/4o1Gl1f 🧪
- Reposted by Thilo Muth[Not loaded yet]
- Carafe - spectral library prediction for DIA proteomics www.nature.com/articles/s41...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth“We fundamentally believe that publishing less – but better – is essential for the health of the entire research system worldwide,” the authors of the report state.
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- DicePlot: A package for high dimensional categorical data visualization url: academic.oup.com/bioinformati...
- A Phosphoproteomic Analysis of Mycobacterial PknG-Mediated Host Immune Evasion | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Evaluation of a Prototype Orbitrap Astral Zoom Mass Spectrometer for Quantitative Proteomics─Beyond Identification Lists | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Data-Independent Immunopeptidomics Discovery of Low-Abundant Bacterial Epitopes | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Published a new article with Roger Karlsson / Uni Gothenburg and Gelio Alves / NIH: From Identification to Insight: Making Full Use of the Diagnostic Potential of MS/MS Proteotyping in Clinical Microbiology Using Efficient Bioinformatics | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Reposted by Thilo MuthHaving a PhD means you can find the word “unfortunately” in an email faster that the search function
- Reposted by Thilo MuthChatbots — LLMs — do not know facts and are not designed to be able to accurately answer factual questions. They are designed to find and mimic patterns of words, probabilistically. When they’re “right” it’s because correct things are often written down, so those patterns are frequent. That’s all.
- Great to see developments for timsTOF data in proteomics and using Rust for it!!! Rustims: An Open-Source Framework for Rapid Development and Processing of timsTOF Data-Dependent Acquisition Data | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Reposted by Thilo Muth[Not loaded yet]
- Collaborators published new Review article on #metaproteomics „Contribution of metaproteomics to unveiling the functional role of the gut microbiome in human physiology and metabolism“: doi.org/10.1080/1478...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo Muth[Not loaded yet]
- Proteomic Diversity in Bacteria: Insights and Implications for Bacterial Identification - Molecular & Cellular Proteomics www.mcponline.org/article/S153...
- Reposted by Thilo Muth[Not loaded yet]
- Integrative Omics and AI-Driven Systems Biology: Multilayer Networks Decoding Apis mellifera Health and Resilience | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Reposted by Thilo MuthVery excited to share the latest work from our lab, which was published today in Nature! nature.com/articles/s41... PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
- Reposted by Thilo MuthMaud Menten was born in Canada in 1879 and completed her UG and MD education at University of Toronto. As a research assistant with Leonor Michaelis in 1912, they wrote the classic paper describing the “Michaelis-Menten” model of enzyme kinetics.. #WomenInScience
- Reposted by Thilo Muth🧠 The Lipid #Brain Atlas is out now! If you think #lipids are boring and membranes are all the same, prepare to be surprised. Led by @lucafusarbassini.bsky.social with Giovanni D'Angelo's lab, we mapped membrane lipids in the mouse brain at high resolution. www.biorxiv.org/cgi/content/...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo MuthOur manuscript describing @riley-research.bsky.social's GlyCounter informatics tool is now in press at Molecular and Cellular Proteomics. Congrats to first-author Katie Kothlow, her first first-author paper! The manuscript is available here: www.mcponline.org/article/S153...
- Reposted by Thilo Muth[Not loaded yet]
- LineageFilter: Improved Proteotyping of Complex Samples Using Metaproteomics and Machine Learning | Journal of Proteome Research pubs.acs.org/doi/10.1021/...
- Reposted by Thilo MuthRegistration is now open for the EuBIC-MS Winter School 2026! Join us in Harrachov, Czechia for a week of keynotes, workshops, and networking on computational MS. Info and registration: eubic-ms.org/events/2026-... #EuBIC2026 #MassSpectrometry #MassSpec #Bioinformatics #Proteomics #Metabolomics
- Reposted by Thilo Muth[Not loaded yet]
- Almost missed that. Led by my dear collegue Tim, a great effort using the column storage format Parquet! mzPeak: Designing a Scalable, Interoperable, and Future-Ready Mass Spectrometry Data Format | Journal of Proteome Research pubs.acs.org/doi/10.1021/... #TeamMassSpec #Proteomics
- Reposted by Thilo Muth[Not loaded yet]
- 🔬 New tool alert! SequenceAssembler assembles complete proteoform sequences by merging PSM & de novo seq data: - Single-assembly platform with Novor, PEAKS, PatternLab - GUI and one-click install - Tested on BSA & trastuzumab Paper in Journal of Proteomics: www.sciencedirect.com/science/arti...
- ImmunoPepper: Extracting personalized peptides from complex splicing graphs url: academic.oup.com/bioinformati...
- Sounds interesting! This software supports HDX-MS method optimization (structural proteomics), protease characterization, and routine QC in bottom-up #proteomics. DigDig: A Software for In-Depth Analysis and Comparison of Proteolytic Digestion | Analytical Chemistry pubs.acs.org/doi/full/10....
- NovoLign: metaproteomics by sequence alignment: academic.oup.com/ismecommun/a...
- Reposted by Thilo Muth[Not loaded yet]
- Reposted by Thilo MuthRegister Now! ✨ How to Get Started with Teaching 📅 October 14th | 🕓 16:00 CEST Fredrik Edfors – Royal Institute of Technology, Sweden Amanda Patrick – Mississippi State University, USA David Tabb – Universitair Medisch Centrum Groningen, Netherlands 👉Register us06web.zoom.us/webinar/regi...
- Reposted by Thilo MuthThere is a position open in our lab, within this network. Our project deals with assessing identification and quantification errors for MS-based proteomics. www.protaiomics.eu/project/dc13... Please check out all the project descriptions at the site below:
- Reposted by Thilo Muth[Not loaded yet]
- New Preprint (AI again…): Representations Augmented Autoregressive Biological Sequence Generation: Application in De Novo Peptide Sequencing. Benchmarked on #antibody data. arxiv.org/abs/2510.08169 #TeamMassSpec #Proteomics
- Metaproteomics Symposium 2026, taking place from June 21–24, 2026, in Dessau-Roßlau, Germany! Join us for talks and discussions with leading experts in the field of metaproteomics. Meet researchers, share your work + explore the advances in metaproteomics research: www.hs-anhalt.de/landingsites...
- 🧠🦠 New study dives beyond taxonomy to explore functional gut microbiome changes in Parkinson’s disease. Using multi-omics, the authors found disrupted microbial gene expression, especially in motility & glutamate pathways, linked to PD and prodromal PD: rdcu.be/eKc1q #microbiome #parkinsons
- Reposted by Thilo Muth[Not loaded yet]
- After all, spotted a paper that comes without “AI“ as method! The authors present a graph-theory-based framework for 2D MS/MS, enabling <1s/sample de novo sequencing via PageRank-based ion grouping & fragmentation tree reconstruction: pubs.rsc.org/en/content/a... #MassSpec #GraphTheory
- 3001! While I know that citation count doesn‘t necessarily correlate with successful #research, it still is good to know that published studies are being read and eventually have an impact on other researchers… #science #publications
- We have a new preprint out on the potential and limitations of de novo sequencing in MS/MS-based proteomics: www.biorxiv.org/content/10.1...
- Reposted by Thilo Muth[Not loaded yet]
- PhD Job Alert: PhD position in metaproteome bioinformatics in Ghent/Belgium with a stay at RKI in Berlin. www.ugent.be/en/work/scie... Feel free to share
- Reposted by Thilo Muth[Not loaded yet]
