articleNature BiotechnologyMay 19, 2022HYBRID OA

Deep Visual Proteomics defines single-cell identity and heterogeneity

AMAndreas MundFCFabian CosciaAKAndrás KristonRHRéka HollandiFKFerenc Kovács

University of Copenhagen · Novo Nordisk Foundation · +16 more institutions

PubMed
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Abstract

Despite the availabilty of imaging-based and mass-spectrometry-based methods for spatial proteomics, a key challenge remains connecting images with single-cell-resolution protein abundance measurements. Here, we introduce Deep Visual Proteomics (DVP), which combines artificial-intelligence-driven image analysis of cellular phenotypes with automated single-cell or single-nucleus laser microdissection and ultra-high-sensitivity mass spectrometry. DVP links protein abundance to complex cellular or subcellular phenotypes while preserving spatial context. By individually excising nuclei from cell culture, we classified distinct cell states with proteomic profiles defined by known and uncharacterized proteins. In an…

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Topics & keywords

Topics
Keywords
  • Proteomics
  • Proteome
  • Biology
  • Laser capture microdissection
  • Computational biology
  • Quantitative proteomics
  • Context (archaeology)
  • Phenotype
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