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Peer-reviewedCC BYChemical & biomedical imaging

MeXpose 2.0: A Comprehensive Toolkit for Single-Cell Spatial (Metall-)omicsCovering All Steps from Image Reconstruction to Integrative Analysis.

  • Gabriel Braun1,2
  • Lyndsey Hendriks1
  • Claude Molitor1,2,3
  • Hoang Anh Nguyenová1,2
  • Elisabeth Foels1,2
  • Martin Schaier1
  • Gunda Koellensperger1
  1. 1Institute of Analytical Chemistry, Faculty of Chemistry, University of Vienna, 1090 Vienna, Austria.
  2. 2Vienna Doctoral School in Chemistry (DoSChem), University of Vienna, 1090 Vienna, Austria.
  3. 3Institute of Inorganic Chemistry, Faculty of Chemistry, University of Vienna, 1090 Vienna, Austria.
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Abstract

MeXpose 2.0 is a major update to our interactive workflow for comprehensive analysis of multiplexed imaging data, optimized for spatial metallomics. This release streamlined the existing pipeline by replacing third-party software with custom Jupyter notebooks for image reconstruction, preprocessing, and data extraction. Additional features such as limit-of-detection calculations, interactive region-of-interest annotations, cytometry-style gating, and integrated spatial statistics enhance both exploratory and quantitative analyses within a single, compact environment. MeXpose 2.0 is free and open-source, available at https://github.com/koellenspergerlab/mexpose under the MIT license. Additional test data are available at https://doi.org/10.5281/zenodo.20287869.

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Cite

BibTeXRIS
BibTeX
@article{braun2026mexpose,
  title = {{MeXpose 2.0: A Comprehensive Toolkit for Single-Cell Spatial (Metall-)omicsCovering All Steps from Image Reconstruction to Integrative Analysis.}},
  author = {Gabriel Braun and Lyndsey Hendriks and Claude Molitor and Hoang Anh Nguyenová and Elisabeth Foels and Martin Schaier and Gunda Koellensperger},
  journal = {Chemical \& biomedical imaging},
  year = {2026},
  month = jul,
  doi = {10.1021/cbmi.6c00070},
  url = {https://europepmc.org/article/MED/42953662},
  note = {CC BY},
}
RIS
TY  - JOUR
TI  - MeXpose 2.0: A Comprehensive Toolkit for Single-Cell Spatial (Metall-)omicsCovering All Steps from Image Reconstruction to Integrative Analysis.
AU  - Gabriel Braun
AU  - Lyndsey Hendriks
AU  - Claude Molitor
AU  - Hoang Anh Nguyenová
AU  - Elisabeth Foels
AU  - Martin Schaier
AU  - Gunda Koellensperger
PY  - 2026
DA  - 2026/07/10
JO  - Chemical & biomedical imaging
DO  - 10.1021/cbmi.6c00070
UR  - https://europepmc.org/article/MED/42953662
AB  - MeXpose 2.0 is a major update to our interactive workflow for comprehensive analysis of multiplexed imaging data, optimized for spatial metallomics. This release streamlined the existing pipeline by replacing third-party software with custom Jupyter notebooks for image reconstruction, preprocessing, and data extraction. Additional features such as limit-of-detection calculations, interactive region-of-interest annotations, cytometry-style gating, and integrated spatial statistics enhance both exploratory and quantitative analyses within a single, compact environment. MeXpose 2.0 is free and open-source, available at https://github.com/koellenspergerlab/mexpose under the MIT license. Additional test data are available at https://doi.org/10.5281/zenodo.20287869.
SN  - 2832-3637
ER  -