📣 Research software developer for Mass Spectrometry metabolomics data
Join my team 🤗 in this collaborative project with @sneumann
👇
- #rstats 
software development
- contribute to @bioconductor and @galaxyproject
- opportunity to work with large-scale #metabolomics and #proteomics data
- hiking 🏔️
📍 Bolzano, 🇮🇹
⏲️ 3 year position
🔗 full description/apply: https://bit.ly/4pyXi3V
Der Mann hat was neues für #Lupus gefunden - oder wie @kabalak selbst sagen würde:
In conclusion, this study uncovers a new dimension of immune crosstalk: a proteolytic plasma network that generates immunoactive fragments with intrinsic self-regulatory capabilities to modulate #inflammation and tissue injury in complex disease contexts. Deciphering these immunoactivities may pave the way for innovative diagnostic and therapeutic strategies in complement-driven pathologies, potentially benefiting a wide range of inflammatory and autoimmune diseases.
#AutoimmuneDiseases #InflammatoryDisease #Science #SLE #proteomics #MassSpec #TeamMassSpec #LupusResearch
https://www.embopress.org/doi/full/10.1038/s44318-025-00598-8
Happy to announce the publication of our roadmap for #MzPeak, a truely open, performant format for storage of mass spectrometry data:
Please find the paper at https://pubs.acs.org/doi/full/10.1021/acs.jproteome.5c00435
#OpenScience #TeamMassSpec #Proteomics #ProteomicsStandardsInitiative
Advances in mass spectrometry (MS) instrumentation, including higher resolution, faster scan speeds, and improved sensitivity, have dramatically increased the data volume and complexity. The adoption of imaging and ion mobility further amplifies these challenges in proteomics, metabolomics, and lipidomics. Current open formats such as mzML and imzML struggle to keep pace due to large file sizes, slow data access, and limited metadata support. Vendor-specific formats offer faster access but lack interoperability and long-term archival guarantees. We here lay the groundwork for mzPeak, a next-generation community data format designed to address these challenges and support high-throughput, multidimensional MS workflows. By adopting a hybrid model that combines efficient binary storage for numerical data and both human- and machine-readable metadata storage, mzPeak will reduce file sizes, accelerate data access, and offer a scalable, adaptable solution for evolving MS technologies. For researchers, mzPeak will support complex workflows and regulatory compliance through faster access, improved metadata, and interoperability. For vendors, it offers a streamlined, open alternative to proprietary formats. mzPeak aims to become a cornerstone of MS data management, enabling sustainable, high-performance solutions for future data types and fostering collaboration across the mass spectrometry community.
🚨 job alert: Interested in integrating our R tools into Galaxy?
Develop and test the integration of a modular toolbox for metabolomics data
processing and user-friendly interactive visualizations into the Galaxy
framework.
👉 apply if you like:
- #rstats (ev 
) SW development
- contributing to @bioconductor and @galaxyproject
- large-scale #metabolomics data analysis
- hiking ⛰️
📍 Bolzano, 🇮🇹
⏲️ 3 year position
🔗 info and apply: http://bit.ly/46AMawx
Collaboration with @sneumann
We just had the kickoff meeting for the #ProteomicsStandardsInitiative #AI working group yesterday. I think it went well, but we'd also like to get more input on what our scope and mandate should be (and as always more volunteers). You can watch the recording here: https://cloud.samwein.com/s/oyjG4ijeEDbiSRF
We just added a #reproducible example for large-scale #metabolomics data preprocessing using the @bioconductor #xcms package to @phili 's #Metabonaut tutorials resource! 💪
https://rformassspectrometry.github.io/Metabonaut/articles/large-scale-analysis.html
runs also on a standard 💻 - thanks to the new memory-saving processing in #xcms
using the largest (n=4000) data set from MetaboLights
Johannes Rainer
MSAID
Fatih Demir
Tired Cohnina MacGuffin
Dr. Samuel Wein
