Evosep webinar

HUPO 2024 Highlights: STANDARDIZING AND SCALING AUTOMATED WORKFLOWS FOR CUTTING EDGE PROTEOMICS

Available on demand

Get an overview of Evosep latest innovation within robust, high-throughput proteomics and automated end-to-end workflows presented at HUPO 2024.

Together with our users we will discuss:

• The OneTip workflow and how to streamline your processes with high efficiency.
• Single cell developments with our new Whisper Zoom methods
• Scalability & End-to-End Workflows and how this could benefit your work.

Join this session to learn how Evosep’s approaches are driving new standards in efficiency, precision, and scalability for MS-based proteomics. 

SPEAKERS

Automated sample preparation and Optimized Data Acquisition Pipeline for Large-Scale Proteomics in Targeted Protein Degradation

Talk by Mohammad Arefian, Postdoctoral Research associate, Queen’s university belfast

Efficient and scalable workflows are essential for chemical biology, particularly in global proteomics perturbation screens. We developed a high-throughput pipeline using the Opentrons OT2 robot for automated sample preparation, optimized for Evosep LC in a 96-well plate format. Chromatography and MS parameters were refined for high-quality data via self-packed columns with Evosep LC. Using NextFlow workflow in cluster-based Spectronaut processing significantly reduced analysis time. Applying this workflow to study degradation kinetics of targeted proteins, 96 THP-1 cell samples treated with MZ1 PROTAC, we analyzed peptides from 20,000 cell equivalents, identifying over 8,500 protein groups, including degradation MZ1 targets, like BRD4.d

High-throughput proteome integral solubility alteration assay for low cell input using One-Tip

Talk by Maico Lechner, PhD fellow at University of Copenhagen

Combining proteome integral solubility alteration (PISA) with the One-Tip method streamlines sample preparation in mass spectrometry-based drug-target engagement assays, enhancing throughput and scalability. Using n-Dodecyl-Beta-Maltoside (DDM) for cell lysis, this approach reduces cell requirements to 200 cells per µL and enables direct transfer to One-Tip, yielding similar proteome depth and higher reproducibility with less material, solvent, and faster digestion than traditional methods. The One-Tip-PISA setup in a 96-well plate format allows for cell treatment-to-injection within 12 hours, making it a rapid, cost-effective, and accessible option for broad laboratory use.

In-depth and high-throughput single-cell proteomics workflow defines function subtypes

Talk by Marvin Thielert, Postdoc at Max Planck Institute for Biochemistry

We present an optimized single-cell proteomics workflow combining oil-free microfluidic automated sample preparation with the Orbitrap Astral mass spectrometer and Whisper Zoom technology. This integration enables throughput of up to 120 cells per day while achieving remarkable proteomic depth of 3,000-5,000 protein groups. Applied to melanoma cells, our method revealed distinct proteomic signatures in treatment-resistant ‘persister cells’, including elevated epithelial-mesenchymal transition (EMT) and glycolysis metabolism. This advancement demonstrates the potential of single-cell proteomics in understanding cellular heterogeneity with unprecedented depth.