Unearth the Full Potential of DDA Proteomics with SpectroMine™ 3 - Biognosys
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Unearth the Full Potential of DDA Proteomics with SpectroMine™ 3

What’s New in SpectroMine 3?

Improving Single Cell Proteomics with Advanced Data Acquisition and Data Analysis

Tikira Temu (Biognosys)

Lead developer Tikira Temu is presenting new features in SpectroMine 3, the latest version of our all-in-one software solution for DDA proteomics. Learn how to make the most of your isobaric labeling quantification (ILQ) data, including TMTpro 18-plex experiments. The new PTM workflow makes it easy to extract valuable information about peptide modifications while taking full advantage of Pulsar, our industry-leading search engine. SpectroMine 3 also comes with improved fractionation support, specialized immunopeptidomics functionalities and dramatically increased processing speed, especially for analyses with multiple variable modifications.

Erwin M. Schoof (Technical University of Denmark)

Blood cells are a prime example of complex cellular hierarchy, with Hematopoietic Stem Cells (HSC) as the origin of many cell lineages. The Schoof lab subjected healthy and malignant hematopoietic cells to fluorescence-activated cell sorting (FACS) combined with novel single-cell proteomics (scMS) strategies. Using the latest LC-MS instrumentation with intelligent data acquisition and advanced data analytics provided by Spectromine 3, this approach resulted in unprecedented maps of protein expression in individual cells. Furthermore, they developed a computational workflow (SCeptre) for effective MS data post-processing and FACS data integration to extract cell-specific proteins. Results show enrichment of cell-type specific proteins in various compartments, and protein signatures that clearly distinguish the differentiation stages within their respective hierarchies.

Short-Bio Tikira Temu:

During her studies in bioinformatics at the LMU and TUM in Munich, Tikira started working in proteomics software development. At the end of her undergraduate studies, she joined the Department for Proteomics and Signal Transduction of Matthias Mann at the Max Planck Institute of Biochemistry in Munich. Under Jürgen Cox, she was working on developing new algorithms and data analysis workflows for MaxQuant and Perseus. After developing medical devices for Roche Diagnostics, Tikira joined the bioinformatics team at Biognosys in 2019 to continue her proteomics journey in her current role as lead developer of SpectroMine.

Short-Bio Erwin M. Schoof:

Erwin M. Schoof received his PhD from the Technical University of Denmark (DTU) in 2014 for his work on computational methods to model cell behavior. Since 2017, he has been head of the Proteomics Core Facility at DTU, a facility specialized in high-sensitivity proteomics workflows. He was appointed Associate Professor at the Department of Biotechnology and Biomedicine in 2020. His research focuses on normal and malignant hematopoiesis, which involves comprehensive optimization of single-cell proteomics workflows for deciphering cellular heterogeneity.

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