Related Experiment Video
Updated: Jun 19, 2026
08:23
Using Human Intestinal Organoids to Understand the Small Intestine Epithelium at the Single Cell Transcriptional Level
Published on: June 28, 2024
Whole-organ spatial transcriptional analysis at cellular resolution using TRISCO
Yue Li1, Abigail Walton1, Judith C Kreutzmann1
1Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.
Nature Protocols
|June 17, 2026
Summary
A new method called TRISCO enables whole-organ RNA mapping in 3D. This technique provides detailed single-cell RNA data across entire tissues, advancing biological system understanding.
Area of Science:
- Molecular biology
- Histology
- Genomics
Background:
- 3D histology enables molecular profiling of intact organs.
- Current whole-organ RNA transcript imaging techniques are underdeveloped.
- Protein visualization is the primary focus of existing methods.
Purpose of the Study:
- To present a detailed protocol for Tris buffer-mediated retention of in situ hybridization chain reaction signal in cleared organs (TRISCO).
- To enable single-cell RNA three-dimensional mapping across tissue volumes.
- To provide a straightforward and adaptable method for whole-organ RNA transcript imaging.
Main Methods:
- Tris buffer-mediated retention of in situ hybridization chain reaction signal in cleared organs (TRISCO).
- Homogeneous and well-preserved labeling throughout entire tissues.
- Application to cleared mouse organs (brain, lung, heart, kidney, spinal cord) and rat and guinea pig brains.
Main Results:
- TRISCO successfully applied to multiple intact organs across species.
- Ensured homogeneous and well-preserved labeling throughout the entire tissue.
- Demonstrated feasibility for single-cell RNA 3D mapping.
Conclusions:
- TRISCO is a straightforward protocol for whole-organ RNA transcript imaging.
- The method is adaptable, avoids harsh treatments, and requires no specialized instrumentation.
- TRISCO facilitates comprehensive understanding of biological systems through 3D RNA mapping.