Multi-omics workflows promise deeper biological insight, but sample preparation remains a significant bottleneck. Proteomics and metabolomics are typically collected in separate, parallel workflows, increasing handling and technical variability. Without a unified approach that generates multiple analysis-ready fractions from a single sample, reproducibility and scalability become harder to achieve.  

To address this need, we present the Si-Trap™ (Simultaneous Trapping), a high-throughput, detergent-free multi-omics sample preparation platform designed to separate and capture proteins, lipids, and metabolites from one sample with inter- and intra-run reproducibility. The workflow starts with detergent-free lysis, followed by neutralization and organic-solvent denaturation. Proteins are captured within derivatized pores through weak-affinity interactions, while metabolites flow through as a small-molecules fraction compatible with direct mass spectrometry analysis. Trapped proteins are processed in situ on the 96-well plate (denaturation, reduction, and alkylation), digested with the user’s protease of choice, and peptides are subsequently eluted for LC-MS. We also offer an optional lipid extraction solution, that allows for biphasic separation and collection of lipids from the same sample.  

Using HuH-7 cells under PFAS exposure as a representative model, we found that Si-Trap™ matched standard S-Trap™ proteomics depth while outperforming a standard ACN:MeOH extraction for 39 of 42 detected metabolites, delivering 1.0- to 7.5-fold higher signal. The Si-Trap™ also detected trends in biologically relevant metabolites that were not observed with the standard workflow. The Si-Trap™ can outperform conventional metabolomics extraction methods, without compromising proteomic recovery and depth. 

By eliminating parallel prep workflows, Si-Trap™ reduces handling and variability while supporting scalable, automation-ready processing in a 96-well format. The result is a practical, time-saving, and cost-effective path to reproducible multi-omics sample preparation. Spend less time splitting samples and troubleshooting prep, and more time generating LC-MS data you can trust. Ongoing work is evaluating additional molecular classes to further expand coverage and maximize information recovered from samples. 

Be on the lookout- Si-Trap™ is launching this month!