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Related Experiment Video

Updated: Jun 27, 2025

A Three-dimensional Model of Spheroids to Study Colon Cancer Stem Cells

A Three-dimensional Model of Spheroids to Study Colon Cancer Stem Cells

Published on: January 22, 2021

Tissue and cellular spatiotemporal dynamics in colon aging.

Aidan C Daly^1,2, Francesco Cambuli¹, Tarmo Äijö²

¹New York Genome Center, New York, NY, USA.

Biorxiv : the Preprint Server for Biology

|May 7, 2024

Summary

Researchers mapped the aging colon using spatial transcriptomics and single nucleus RNA-seq, revealing cellular and molecular changes across different regions and ages. This atlas helps understand aging

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In vitro Organoid Culture of Primary Mouse Colon Tumors

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Published on: May 17, 2013

Area of Science:

Gastroenterology and Aging Research
Computational Biology and Spatial Omics

Background:

Systemic aging significantly impacts colon tissue structure and molecular function.
The specific molecular signals driving age-related colonic changes are not fully understood.

Purpose of the Study:

To create a comprehensive cellular and spatial atlas of the mouse colon across aging.
To identify molecular and cellular gradients and aging-associated multicellular programs within the colon.

Main Methods:

Profiling of approximately 1,500 mouse gut tissues using spatial transcriptomics.
Analysis of around 400,000 single nucleus RNA-sequencing profiles.
Development and application of a novel computational framework, cSplotch, for integrated analysis.

Main Results:

Identification of distinct cellular and molecular gradients along the colonic tract and crypt axis.
Discovery of multicellular programs associated with aging in the large intestine.
Leveraging histological features to enhance information sharing across samples and data types.

Conclusions:

The developed multi-modal framework provides insights into cell and tissue organization during aging.
This atlas aids in understanding the role of cellular dynamics in age-related colonic pathology.