ReviewNature methods2024
Deep 3D histology powered by tissue clearing, omics and AI.
Review in Nature methods, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed.
- 3D multi-omics tumour atlases: from technology to biology and clinical translation.Nature reviews. Cancer · 2026Review
- Whole-mouse immunolabeling at cellular resolution for comprehensive 3D atlases.Nature protocols · 2026Review
- Towards 3D-oid models that integrate molecular, morphological and spatial cellular features.Nature reviews. Molecular cell biology · 2026Article
- Deep-learning triage of three-dimensional pathology datasets for comprehensive and efficient pathologist assessments.Nature biomedical engineering · 2026Article
- A uniform tissue-clearing framework and mesoSPIM-ultra enable cm-scale single-neuron tracing.bioRxiv : the preprint server for biology · 2026Article
- Whole-organ spatial transcriptional analysis at cellular resolution using TRISCO.Nature protocols · 2026Review
- Hybrid solid-liquid optics enable scalable, high-resolution light-sheet microscopy across diverse immersion media.Nature biotechnology · 2026Article
- Guidelines for evaluating endothelial function in vascular tissue.American journal of physiology. Heart and circulatory physiology · 2026Review
- Novel Approaches for Investigating Host Responses to HIV Infection in Ex Vivo Human Genital Tissues.American journal of reproductive immunology (New York, N.Y. : 1989) · 2026Review
- Spatial architecture of development and disease.Nature reviews. Genetics · 2026Review
- The Neurogenic Niche: Interactions Among Vessels, Glia, and Neural Stem Cells.Stem cells international · 2026Review
- Current progress of labeling strategies in tissue clearing for large-scale biological visualization.Frontiers in cell and developmental biology · 2026Review
- Multiscale 3D Whole Joint Cellular and Molecular Mapping Reveals Disease-Specific Neurovascular Plasticity Underlying the Structure-Pain Relationship.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Nanoscale Imaging of Biological Tissues: Techniques, Challenges and Emerging Frontiers.Nanomaterials (Basel, Switzerland) · 2025Review
- Hybrid Solid-Liquid Optics Enable Scalable, High-Resolution, Multi-Immersion Light-Sheet Microscopy.bioRxiv : the preprint server for biology · 2025Article
- Unlocking the potential of large-scale 3D imaging with tissue clearing techniques.Microscopy (Oxford, England) · 2025Review
- Article
- Optical tissue clearing and 3D imaging of intact primate testicular tissue: a novel technology development.PloS one · 2025Article
- 3D visualization of uterus and ovary: tissue clearing techniques and biomedical applications.Frontiers in bioengineering and biotechnology · 2025Review
- Machine learning methods for histopathological image analysis: Updates in 2024.Computational and structural biotechnology journal · 2025Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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.
Indexed as
Identifiers
38997593What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.