PuSH - Publication Server of Helmholtz Zentrum München

Ertürk, A.

Deep 3D histology powered by tissue clearing, omics and AI.

Nat. Methods 21, 1153-1165 (2024)
DOI PMC
Open Access Green as soon as Postprint is submitted to ZB.
To comprehensively understand tissue and organism physiology and pathophysiology, it is essential to create complete three-dimensional (3D) cellular maps. These maps require structural data, such as the 3D configuration and positioning of tissues and cells, and molecular data on the constitution of each cell, spanning from the DNA sequence to protein expression. While single-cell transcriptomics is illuminating the cellular and molecular diversity across species and tissues, the 3D spatial context of these molecular data is often overlooked. Here, I discuss emerging 3D tissue histology techniques that add the missing third spatial dimension to biomedical research. Through innovations in tissue-clearing chemistry, labeling and volumetric imaging that enhance 3D reconstructions and their synergy with molecular techniques, these technologies will provide detailed blueprints of entire organs or organisms at the cellular level. Machine learning, especially deep learning, will be essential for extracting meaningful insights from the vast data. Further development of integrated structural, molecular and computational methods will unlock the full potential of next-generation 3D histology.
Altmetric
Additional Metrics?
[➜Log in]
Edit extra informations Login
Publication type Article: Journal article
Document type Review
Corresponding Author
Keywords Common Coordinate Framework; Light-sheet Microscopy; Whole-body; Cancer Metastasis; Intact-tissue; Resolution; Expression; Proteomics
ISSN (print) / ISBN 1548-7091
e-ISSN 1548-7105
Journal Nature Methods
Quellenangaben Volume: 21, Issue: 7, Pages: 1153-1165 Article Number: , Supplement: ,
Publisher Nature Publishing Group
Publishing Place New York, NY
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Institute for Tissue Engineering and Regenerative Medicine (ITERM)
Grants Nomis Heart Atlas Project Grant (Nomis Foundation)
European Research Council
Deutsche Forschungsgemeinschaft (German Research Foundation)
Vascular Dementia Research Foundation