Multiplexing in #singlecellproteomics can substantially increase throughput, but requires flexible and easy to implement, scalable and sensitive sample preparation strategies for highest data quality. In collaboration with the Slavov Lab, we demonstrate in this application note, an nPOP workflow that can accommodate different numbers of labels and different reagents simply by programming different configurations of droplets deposited on the surface of glass slides. nPOP with non-isobaric tags, or plexDIA approach, is providing an automated option for scaling up single-cell proteomics for analysis of thousands of single cells with proteome depths comparable to label-free DIA applications. We applied plexDIA in a fully automated 3-label approach on CFPAC-1 pancreatic cancer, WM-989 melanoma, and THP-1 leukemia cell lines (126 single cells in total) using the timsTOF Ultra in dia-PASEF mode. This approach allowed to analyze almost 100 samples per day with a proteome depth of more than 3000 proteins per cell (4500 in total) and quantification of > 80,000 precursors per individual plexDIA run. #TIMS separation aided in complexity reduction by MOMA. Intercalated MS1 scans in the dia-PASEF method increased the average number of data points per peak to 14.6 increasing quantitative accuracy. Read more: https://lnkd.in/euyegGUw #massspectrometry #proteomics #timsTOF
Bruker Daltonics’ Post
More Relevant Posts
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If you could simultaneously image >100 proteins on a tissue section, how would you ask questions differently? Our LabCast Part II on July 25, 2024 will show you how to get more insight per pixel in spatial biology applications using the neofleX. Learn more: https://lnkd.in/eDtMKNm6 #maldiimaging #neoflex
LabCast: More insight per pixel in spatial biology applications using the neofleX
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Join our LabCast Part I on July 23, 2024 and learn about #maldiimaging with #neoflex, the newest benchtop mass spectrometer from Bruker. In this LabCast you will learn about the complete imaging solution with automated workflows using neofleX bringing together intuitive software and modern hardware for seamless automation. https://lnkd.in/eYbHZr-c
LabCast: A complete imaging solution with automated workflows using neofleX
bruker.com
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Today is the big day. We are excited to announce the opening of the MDC-Bruker Center of Excellence for #singlecell omics at the Max-Delbrück Center - Berlin Institute for Medical Systems Biology, spearheaded by Nikolaus Rajewsky, Matthias Selbach, Fabian Coscia, and Stefan Kempa (MDC), Rohan Thakur, Christoph Krisp, and Matthew Lewis (Bruker). A center for innovation and cutting-edge research in the area of single cell and minimal sample amounts with a particular focus on #spatialomics in systems medicine. Learn more: https://lnkd.in/eyYCZpKf
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In this research article, the proteomes of more than 3000 individual nuclei have been analyzed to identify regulators of nucleoplasmic protein transport in macrophages, linking functional variability to proteome variability. Learn more: https://lnkd.in/e6t74V4B #massspectrometry #proteomics #timsTOF #TIMS
Single-nucleus proteomics identifies regulators of protein transport
biorxiv.org
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The timsTOF Ultra 2 is here to redefine the boundaries of mass spectrometry. Designed for the most demanding research environments, this state-of-the-art instrument is set to revolutionize your lab’s capabilities. Let’s dive into what makes the timsTOF Ultra 2 a game-changer in the world of proteomics. Key Features and Benefits: ICC 2.0 (Ion Charge Control): Benefit: ICC 2.0 ensures optimal ion control, enhancing the precision and accuracy of your measurements. This feature is crucial for handling a broad range of sample loads, from low picograms to micrograms, making your experiments more reliable and reproducible. Upgradeability: Benefit: The timsTOF Ultra 2 is designed with future advancements in mind. Its upgradable platform allows you to seamlessly integrate the latest technological innovations, ensuring your research stays at the cutting edge without the need for a complete system overhaul. Unmatched Sensitivity: Benefit: With the ability to detect up to 50% more protein groups and 100% more peptides at 25 pg sample loads, the timsTOF Ultra 2 offers unparalleled sensitivity. This capability is essential for deep proteomic profiling, enabling groundbreaking discoveries even from the smallest samples. Bruker ProteoScape with Spectronaut 19: Benefit: The integration of Bruker ProteoScape with Spectronaut 19, specifically trained on timsTOF data, enhances the depth and accuracy of protein quantitation. This powerful combination allows for more comprehensive and precise proteomic analyses, pushing the boundaries of what’s possible in your research. Ready to elevate your research to new heights? Connect with us to explore how the timsTOF Ultra 2 can transform your proteomics studies. Let’s push the frontiers of science together!” Learn more about the timsTOF Ultra 2: https://lnkd.in/eYpXVHDA #massspectrometry #proteomics #timsTOF
timsTOF Ultra 2
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Mark your calendars for Bruker's eXceed Symposia at HUPO taking place on October 20, 2024, 11:00 - 14:00 CEST in Dresden, Germany. Join us and hear about our groundbreaking advancements in mass spectrometry. More information about the agenda and the registration link will follow soon. #massspectrometry #proteomics #Bruker
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Expand your spatial biology solutions to another dimension. Bring multiomic workflows together to dig deeper into the expression profiles of tissues. Push your translational research to the next level with the benchtop system that doesn’t compromise on performance. Read more: https://lnkd.in/gBAk7YN9 #spatialbiology #maldiimaging #HiPLEX
neofleX Imaging Profiler
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If you could simultaneously image >100 proteins on a tissue section, how would you ask questions differently? Methods that track targeted protein expression on tissue surfaces have significantly changed the understanding of biology and disease. The ability to connect data from single cell, or bulk experiments to specific locations within the tissue microarchitecture informs deep insight on how cellular neighborhoods interact to drive biological processes and disease states. Learn more about neofleX: https://lnkd.in/g5SVZCD4 #spatialbiology #maldiimaging #bruker #ihc #hiplex #neoflex
neofleX
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Wondering how easily ultra-high sensitivity can be implemented in the MS lab, and to which extent it can change the analytical outcome to the benefit of biological research? Join us on July 11 to witness the transition journey from a timsTOF PRO to a timsTOF Ultra to boost the outcome for single cell and immunopeptidomic approaches. Register here: https://lnkd.in/gNf2cFpq #massspectrometry #proteomics #immunopeptidomics #singlecell
Webinar on timsTOF Ultra: Immunopeptidomics and single cell proteomics explorations
