Bead-based plasma #proteomics workflows boost proteome coverage but are vulnerable to cellular contamination, highlighting the need for contamination-aware quality control in #biomarker discovery.

K. Korff, M. Mann, P. Geyer & colleagues @mpibiochem.bsky.social

🗞️ doi.org/10.1038/s443...

Pre-analytical drivers of bias in bead-enriched plasma proteomics | EMBO Molecular Medicine www.embopress.org/do...

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#proteomics #prot-paper

New approach tackles studying rare pediatric diseases! We developed an ontology-guided clustering framework using SNOMED CT to analyze proteomes from 1,140 children across 394 conditions - enabling meaningful insights even with tiny patient numbers!
www.embopress.org/doi/full/10....

Ontology-guided clustering enables #Proteomic analysis of rare #PediatricDisorders

By Ericka CM Itang, Johannes Mueller-Reif and colleagues @mpibiochem.bsky.social & German Center for Child and Adolescent Health

🗞️ doi.org/10.1038/s443...

Our new paper is out in EMBO Mol Med: we combine clinical ontologies with deep proteomics to study rare pediatric diseases. A step toward scalable, systems-level insight into child health.
Grateful to all collaborators & families.
www.embopress.org/doi/full/10....

To bead or not to bead? We evaluate five plasma proteomics workflows, finding bead-based methods enhance detection but show high susceptibility to cellular contamination bias. Strategies to optimize biomarker discovery in plasma proteomics.
www.biorxiv.org/content/10.1...

Check out ADAPT-MS: our flexible, scalable diagnostic framework that transforms discovery plasma proteomics directly into clinical decisions.Dynamic retraining enables single-sample diagnostics for any clinical question.
www.medrxiv.org/content/10.1...

A regular question from clinical partners to me is: can you tell me if this patient has disease A or B from the plasma proteome? This sparked a new idea: ADAPT-MS is a concept framework enabling diagnostic classification from single sample discovery proteomics data.
www.medrxiv.org/content/10.1...

An adaptive, continuous-learning framework for clinical decision-making from proteome-wide biofluid data https://www.medrxiv.org/content/10.1101/2025.05.02.25326901v1

Our PCA-N workflow featuring a neutralization step allows direct enzymatic digestion, doubles proteome depth from 5µL neat plasma, and handles 10K+ sample-preps daily. Democratizing plasma proteomics with 50K sample validation. Check it out on bioRxiv!
www.biorxiv.org/content/10.1...

A simplified perchloric acid workflow with neutralization (PCA-N) for democratizing deep plasma proteomics at population scale https://www.biorxiv.org/content/10.1101/2025.03.24.645089v1

A simplified perchloric acid workflow with neutralization (PCA-N) for democratizing deep plasma proteomics at population scale https://www.biorxiv.org/content/10.1101/2025.03.24.645089v1