New Developments in Mass Spectrometry-Based Single-Cell Proteomics

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Fri, Oct 21, 2022 11:00 AM EDT Learn how Karl Mechtler has developed an end-to-end workflow to efficiently prepare and analyze samples for single-cell proteomics by mass spectrometry. This workflow enables direct injection of single cells to identify approximately 1,500 protein groups per analytical run and uncover the surprising heterogeneity of cell populations.

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Event Overview:

The analysis of single-cell proteomes has recently become a viable complement to transcriptomics and genomics studies, as proteins are the main driver of cellular functionality and mRNA levels are often an unreliable proxy of such. Both multiplexed and label-free mass spectrometry-based approaches with single-cell resolution have attributed surprising heterogeneity to cell populations believed to be homogenous. Even though specialized experimental designs and instrumentation have demonstrated remarkable advances, the efficient sample preparation of single cells still lags behind.
In this live webinar, we will discuss the use of a single-cell proteomics sample preparation device, coupled to mass spectrometers, which comprises a single-cell proteomics workflow solution with surprising sensitivity and throughput.

  • Multiplexed and label-free one-pot workflows were developed that are robust, sensitive and loss less.
  • Versatile and automated sample preparation drives biological applications of single-cell proteomics.
  • Identifies nearly 2,600 proteins across 170 multiplexed single cells from two highly similar human cell types.

Key Learning Objectives:

  • Identify key challenges and solutions for single-cell proteomics experiments
  • Understand an end-to-end workflow for single-cell proteomics sample preparation and analysis
  • Learn how mass spectrometry approaches can be applied to single-cell proteomics

Who Should Attend:

  • Proteomics researchers
  • Scientists
  • Laboratory managers


Karl Mechtler
Head of Protein Chemistry Facility
Research Institute of Molecular Pathology (IMP)

In the Mechtler lab, we are interested in developing new methods to increase the sensitivity, accuracy and precision of protein identification/quantification and the detection of post translational modifications. Our aim is to use these optimized methods to answer fundamental biological questions. We currently aim to optimize miniaturized sample preparation workflows by employing and further adapting published techniques for various biological systems (organoids, tissue samples) and applications (complementing sequencing techniques with proteome expression data). Furthermore, we investigate alternative labeling and acquisition strategies to enable accurate single cell or other very low input proteome measurements.

David Hartlmayr
Proteomics Application Specialist in the Single-Cell Proteomics department at Cellenion, Lyon

David Hartlmayr received his Master’s degree from the University of Natural Resources and Life Sciences, Vienna. As a Masters student and technical assistant in the Mechtler Lab at the Research Institute of Molecular Pathology (IMP), he co-developed and optimized the proteoCHIP workflow for multiplexed single-cell proteomics He is currently a proteomics application specialist at Cellenion, Lyon, carrying out method development of single-cell proteomics workflows.

Manuel Matzinger
Postdoctoral Scientist and Deputy Head
Research Institute of Molecular Pathology (IMP)

Manuel Matzinger focuses on uncovering hidden protein-protein interaction networks and is keen to investigate the proteome of single cells with unprecedented sensitivity and depth. He is responsible for coordination of the group’s method development projects, grants as well as in the supervision of students. As a trained chemist, his research focuses on the development of strategies to enrich low abundant crosslinked peptides from complex matrices enabling sufficient detection by means of mass spectrometry. Furthermore, his research focuses towards single-cell proteomics in tight collaboration with Cellenion. By improving all relevant aspects from sample preparation to fine-tuned chromatographic separation and MS acquisition with state-of-the art equipment, a complete bundle of instrument parameters and tricks yielding in high proteome coverage and quantitative accuracy for ultra-low input is achieved. The optimized workflow strategies are applied aiming to investigate fetal brain development on the most basic level using single cells from brain organoids.

Time and Date:

Fri, Oct 21, 2022 11:00 AM EDT


ThermoFisher Scientific

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