Industry sessions

Speaker 1: Wei Wu, PhD. | Principal Investigator, Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR)

Speaker 2: TBD

Speaker 3: TBD

Speaker 1: Rachel Franklin

Speaker 2: Dan Cuthbertson

This seminar will bring together experts and researchers to share their experience with the Thermo Scientific Orbitrap Astral mass spectrometer. Attendees can expect to gain insights into the latest advancements in omics, as well as learn about the instrumental capabilities and data analysis techniques associated. This seminar will offer a platform for knowledge exchange and collaboration among scientists, paving the way for groundbreaking discoveries and advancements in mass spectrometry research.

Speaker 1: Magnus Jakobsson | Acrivon
Acrivon Predictive Precision Proteomics (AP3)

Speaker 2: Alexey Chernobrovkin | Pelago Bioscience AB
High throughput chemoproteomics on Orbitrap Astral

Speaker 3: Giada Marino | Evotec
Enhancing sample throughput and proteome coverage applying a novel tandem-LC-MS/MS approach

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Join us for a scientifically engaging lunch seminar focused on the high sensitivity achieved with timsTOF technology, particularly in single cell proteomics. Christoph Krisp, Ph.D., will present the Bruker solution portfolio, showcasing how our advancements enable significant biological discoveries from minimal sample material. We'll explore two key concepts: discover how the group of Christine Carapito, Ph.D., Research Director at the LSMBO in Strasbourg, handles larger single cell cohorts as well as immunopeptides, and secondly, how Fabian Coscia, Ph.D., combines imaging techniques to select disease-relevant regions of interest, demonstrating the potential of spatial proteomics workflows. In the context of multiomics in the post-genomic era, learn how integrating imaging and proteomics leads to more informed decisions and deeper biological insights.

12:15 - 12:25 Where sensitivity matters - Ultra-high sensitivity Single Cell mass spectrometry on the timsTOF Ultra 2
Christoph Krisp, Ph.D., Application Development Scientist, Bruker Daltonics, Bremen, Germany

12:25 - 12:50 Spatially resolved tissue proteomics with single-cell sensitivity 
Fabian Coscia, Ph.D., Group Leader, Spatial Proteomics, Max Delbrück Center for Molecular Medicine, Berlin, Germany

12:50 - 13:00 timsTOF Ultra to explore where the very small matters very much: Immunopeptidomics and single cell proteomics explorations
Pauline Perdu-Alloy, Ph.D. Student, BioOrganic Mass Spectrometry Laboratory (LSMBO-IPHC), CNRS and University of Strasbourg, Strasbourg, France

Jeewan Babu Rijal, Post-doctoral fellow, BioOrganic Mass Spectrometry Laboratory, CNRS and University of Strasbourg, France

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The new chapter of SCIEX high-resolution accurate mass systems introduces a whole new level of proteomic depth, sensitivity and speed that can only be possible using Zeno trap enabled technology. As leaders in quantitation, we understand the importance of precision and accurate mass in furthering our understanding of disease mechanisms and biological diversity to offer clinical solutions. Translate experimental insights into actionable biology for the real world.

On Monday, October 21^st, we invite you to the SCIEX Sponsored Lunch Seminar where we will present a new era of proteomics which capitalizes on quantitative accuracy without sacrificing proteomic depth, coverage, and speed. Here, we present ZT Scan DIA which introduces the combined selectivity of data dependent acquisition with the depth of coverage from data independent acquisition to the precision of targeted approaches. This innovative method allows precise quantitation of entire proteomes with exceptional speed and sensitivity, overcoming previous limitations. In addition, we will explore the latest application of electron-based fragmentation methods to further proteomic insight and uncover new levels of biology previously not possible.

Speaker: Parag Mallick

Speaker 1: Deb Bhattacharyya, Ph.D.

Speaker 2: Dr. Ignasi Forne

Speaker 3: Prof. Tadashi Kondo

The world of proteomics presents a unique set of challenges to analytical laboratories, whether they are working in untargeted global proteomics or targeted peptide profiling and quantitation. Despite developments in LC-MS technology, the inherent complexities of proteins, along with the need to increase protein coverage and peptide sequencing depth across all biological matrices, remain significant hurdles. Optimal, robust, and reproducible sample preparation workflows not only enable better quality results, but also ensure other critical requirements, such as scalability and throughput.

Covaris’ breakfast workshop at the World HUPO 2024 in Dresden, Germany, will highlight its Adaptive Focused Acoustics® (AFA®) Technology-enabled comprehensive sample preparation workflows and kits that ensure reliable, reproducible extraction, purification, and digestion of proteins from a host of complex biological matrices – ranging from cells to formalin fixed, paraffin embedded (FFPE) samples.

Speaker Name : Fridtjof Lund-Johansen, MD, PhD

Title and Affiliation : Principal Investigator, Department of Immunology, Oslo University Hospital, Rikshospitalet

In proteomic assays such as the SomaScan® Assay, thousands of affinity reagents are utilized simultaneously to achieve comprehensive profiling. This presentation introduces an innovative methodology to evaluate the specificity of these binders. For this study native cellular proteins were separated into 140 fractions, categorized by subcellular location and size. These fractions underwent parallel analysis using mass spectrometry (MS) and the SomaScan Assay, generating intricate chromatograms. The specificity of SOMAmer® Reagents was determined by correlating their binding patterns with the MS data. Additionally, by employing orthogonal separation techniques such as ion exchange chromatography (IEX), we aim to establish distinct profiles for each target protein. We will also present cases where this method is integrated with immunoprecipitation and MS for the direct identification of bound proteins.

Speaker Bio : Fridtjof Lund-Johansen is a principal investigator at Oslo University Hospital. His research focus is the interface between affinity- and mass spectrometry based proteomics. Among his inventions is a technology known as Microsphere Affinity Proteomics, which is analogous to a highly multiplexed western blot and MAP protein arrays, useful for highly multiplexed virus serology and detection of targets for autoantibodies. Currently, the MAP platform is adapted to allow library-on-library screens to train machine learning algorithms to predict antibody antigen interactions.

Speaker 1: Meredith Carpenter - Head of Scientific Affairs, Quantum-Si 

Speaker 2: Neil Kelleher - Walter and Mary E. Glass Professor of Molecular Biosciences; Professor of Chemistry, Weinberg College of Arts Sciences Professor of Medicine, Feinberg School of Medicine; Director, Northwestern Proteomics; Director, Chemistry of Life Processes Institute

There remains a need in the field of proteomics for orthogonal assays that can provide deeper visibility into parts of the proteome that are less accessible to mass spectrometry. Next-Generation Protein Sequencing™ (NGPS), developed by Quantum-Si, is poised to bridge this gap by directly interrogating protein sequence and diversity at the single-molecule level. Dr. Meredith Carpenter will provide an overview of NGPS and an update on the latest applications, including proteoform detection and protein barcoding. Dr. Neil Kelleher will then discuss his laboratory’s work on combining top-down mass spectrometry and NGPS to more comprehensively characterize the cytokine IL-6. 

The seminar will center around the new Thermo Scientific Stellar MS and will cover various aspects, including its advanced data analytics capabilities, streamlined workflow management, and enhanced reporting functionality. Participants will have the opportunity to gain a comprehensive understanding of its features and capabilities through our guest speakers reporting firsthand on their experience of the Thermo Scientific Stellar MS and providing valuable insights and practical knowledge.

Speaker 1: Johan Gobom | Institutionen för neurovetenskap och fysiologi - Göteborgs universitet, Sweden
Ultra-sensitive PRM for monitoring phospho-Tau peptides in low volumes of plasma using Orbitrap Astral

Speaker 2: Sergey Vakhrushev | University of Copenhagen
High throughput glycoproteomics on Orbitrap Astral

Speaker 3: Lindsay Pino | Talus Bio
Transcription Factors on Target: Leveraging Targeted Mass Spectrometry Proteomics for High-Throughput Small Molecule Screening

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In the modern landscape of mass spectrometry proteomics, bioinformatics has become a cornerstone for generating, managing, and interpreting data efficiently and effectively. Our lunch seminar will delve into this critical aspect, showcasing how scalable bioinformatics solutions can prevent data analysis bottlenecks and ensure rapid, versatile results. Hear from our head of research for Bruker ProteoScape™ (BPS), Jonathan Krieger Ph.D., about our strategies to provide impactful solutions, followed by an insightful talk on rescoring MS2 data to maximize its value by members of the CompOmics group run by Prof. Lennart Martens at the University of Ghent. Finally, we will join Lukas Reiter, Ph.D., CTO at Biognosys, to discover the enhanced capabilities of Spectronaut 19, specifically optimized for timsTOF data, and see how it can elevate your proteomics research. 

Don't miss this opportunity to learn how advanced bioinformatics can influence your project's success.

12:00 - 12:10 Maximize the Potential of Your Data: Scalable Bioinformatics to Access Meaningful Results
Jonathan Krieger, Ph.D., Head of Research, Bruker ProteoScape, Bruker Daltonics, Toronto, Canada

12:10 - 12:35 From raw to refined: Always get more out of your data with TIMSRescore
Robbin Bouwmeester, Ph.D. Postdoctoral Researcher, Research Foundation - Flanders (FWO), Ghent, Belgium

Robbe Devreese, MSc, VIB-UGent Center for Medical Biotechnology & Department of Biomolecular Medicine, Ghent University, Ghent, Belgium

12:35 - 13:00 Advancing DIA data processing: pushing the boundaries and tackling current field challenges
Lukas Reiter, Ph.D., Chief Technology Officer (CTO), Biognosys, Zurich, Switzerland

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Speaker 1: Jochen Schwenk

Speaker 2: Ben Sun

Speaker 3: TBD

This seminar will showcase advancements in structural biology, providing practical knowledge and hands-on experience with the latest tools and methodologies, leading to more precise and comprehensive structural insights. Attendees will delve into the latest techniques for analyzing protein structures within their native cellular environments using advanced mass spectrometry, and explore the innovative crosslinkers that enhance the identification of monolinks and crosslinks, crucial for accurate protein structure determination.

Speaker 1: Prof. Juri Rappsilber | Technische Universität Berlin
Protein structures inside cells by mass spectrometry – how and why

Speaker 2: D. Kish Adoni | UCL
A Novel Crosslinker Improves Monolink and Crosslink Identification for Our Latest Alphafold2 based Integrative Protein Structure Determination Pipeline

Speaker 3: Hugo Gizardin-Fredon | Universite de Strasbourg
Improved XL-MS workflows: benefits of FAIMS-based gas-phase fractionation

Chair: Monika Puchalska, Software Product Manager, Biognosys

Speaker 1: Ben Collins, Professor,  Queen’s University Belfast
Talk title: diaPASEF analysis with Spectronaut in a Linux High Performance Computing Environment – Experience and Applications

Speaker 2: Yansheng Liu, Associate Professor,  Yale University School of Medicine
Talk title: Advanced Multiplex DIA: Quantifying Protein Turnover Impacted by Gene Copy Number Alterations