Magnus S. Bauer

The paper designs and validates protein readers that specifically detect disease-related modifications in Tau and Abeta in Alzheimer's disease models and human samples.

Chaperone, a DataFrame-based framework and agent harness for protein design tools, cut tokens 86% and GPU-hours 64% while raising pass rate from 6% to 12%.

This study designs synthetic activators for programmable gene expression by engineering coactivator-binding proteins and demonstrates their enhanced transcriptional activation capabilities.

This study designs de novo cysteine proteases with high activity and structural novelty, achieving 19% success rate and up to 3 x 10^7 rate enhancement over background reactions.

This study designs genetically encoded miniproteins to modulate FAK kinase activity, showing they can inhibit or activate FAK in vitro and in cells, and adapt them to target other kinases.

This study introduces SM3FS, a high-throughput microfluidic force spectroscopy method to analyze DNA mechanosensitivity, identifying structures that are kinetically stable but mechanically fragile.

RFdiffusion2 scaffolds unindexed atom-level catalytic active sites via flow matching without inverse rotamer enumeration, solving all 41 in silico benchmark cases and yielding active de novo enzymes across four reactions.

This paper introduces RFD2-MI, a deep learning framework for designing phosphotyrosine peptide binders, showing high specificity and affinity for phosphorylated targets.

AtomWorks, a modular atom-level data framework, trains structure prediction and design models; the resulting RF3 improves chirality handling and performs between AF3 and Boltz.

The paper develops RFdiffusion to generate protein binders for IDPs/IDRs, achieving nanomolar affinity and functional applications in amylin and IL2RG.

This paper presents computational methods for designing GPCR-binding miniproteins and validates them through high-throughput screening, producing agonists and antagonists for multiple GPCRs.

This paper introduces mcSA2, a monomeric streptavidin variant for force spectroscopy, showing comparable rupture forces to tetravalent systems and offering regeneration and simplified handling.