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Deep Visual Proteom...
Deep Visual Proteomics defines single-cell identity and heterogeneity
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Mund, A. (author)
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Coscia, F. (author)
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Kriston, A. (author)
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Hollandi, R. (author)
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Kovács, F. (author)
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Brunner, A. -D (author)
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Migh, E. (author)
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Schweizer, L. (author)
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Santos, A. (author)
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Bzorek, M. (author)
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Naimy, S. (author)
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Rahbek-Gjerdrum, L. M. (author)
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Dyring-Andersen, B. (author)
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Bulkescher, J. (author)
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Lukas, C. (author)
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Eckert, M. A. (author)
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Lengyel, E. (author)
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- Gnann, Christian (author)
- KTH,Cellulär och klinisk proteomik,Science for Life Laboratory, SciLifeLab
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Lundberg, E. (author)
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Horvath, P. (author)
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Mann, M. (author)
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(creator_code:org_t)
- 2022-05-19
- 2022
- English.
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In: Nature Biotechnology. - : Springer Nature. - 1087-0156 .- 1546-1696. ; 40:8, s. 1231-1240
- Related links:
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https://doi.org/10.1...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Subject headings
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- 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 archived primary melanoma tissue, DVP identified spatially resolved proteome changes as normal melanocytes transition to fully invasive melanoma, revealing pathways that change in a spatial manner as cancer progresses, such as mRNA splicing dysregulation in metastatic vertical growth that coincides with reduced interferon signaling and antigen presentation. The ability of DVP to retain precise spatial proteomic information in the tissue context has implications for the molecular profiling of clinical samples.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Cell- och molekylärbiologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Cell and Molecular Biology (hsv//eng)
Keyword
- Cell culture
- Cells
- Dermatology
- Mass spectrometry
- Molecular biology
- Oncology
- Tissue
- Cell identity
- Cellular phenotypes
- Cellulars
- Image-analysis
- Laser microdissections
- Link protein
- Proteomics
- Single cell resolution
- Single cells
- Ultra-high-sensitivity
- Proteins
- interferon
- messenger RNA
- proteome
- acinar cell carcinoma
- adult
- antigen presentation
- Article
- cell heterogeneity
- cell nucleus
- controlled study
- female
- human
- human cell
- human tissue
- interferon signaling
- laser microdissection
- melanocyte
- melanoma
- middle aged
- molecular fingerprinting
- phenotype
- protein fingerprinting
- RNA splicing
- salivary gland carcinoma
- single cell analysis
- U2OS cell line
- chemistry
- genetics
- laser capture microdissection
- procedures
- Humans
Publication and Content Type
- ref (subject category)
- art (subject category)
Find in a library
To the university's database
- By the author/editor
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Mund, A.
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Coscia, F.
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Kriston, A.
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Hollandi, R.
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Kovács, F.
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Brunner, A. -D
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show more...
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Migh, E.
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Schweizer, L.
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Santos, A.
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Bzorek, M.
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Naimy, S.
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Rahbek-Gjerdrum, ...
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Dyring-Andersen, ...
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Bulkescher, J.
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Lukas, C.
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Eckert, M. A.
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Lengyel, E.
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Gnann, Christian
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Lundberg, E.
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Horvath, P.
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Mann, M.
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show less...
- About the subject
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Basic Medicine
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and Cell and Molecul ...
- Articles in the publication
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Nature Biotechno ...
- By the university
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Royal Institute of Technology