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Related Experiment Video

Updated: May 14, 2026

Methods to Enable Spatial Transcriptomics of Bone Tissues

Methods to Enable Spatial Transcriptomics of Bone Tissues

Published on: May 3, 2024

A Workflow for Spatial Transcriptomic Analysis from Intra-operative Human Skeletal Muscle Biopsies.

Patricia S Pirbhoy, Vikram Murugan, Michael Hicks

Biorxiv : the Preprint Server for Biology

|May 13, 2026

Summary

This summary is machine-generated.

Spatial transcriptomics successfully mapped gene expression in human muscle biopsies after nerve injury. This provides a foundation for identifying biomarkers to improve nerve repair and reinnervation strategies.

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Area of Science:

Molecular biology
Neuroscience
Skeletal muscle physiology

Background:

Peripheral nerve injury outcomes are variable, with poorly understood molecular mechanisms of human muscle degeneration and recovery.
High-resolution, spatially resolved gene expression data from human skeletal muscle in clinical settings is critically needed.

Purpose of the Study:

To establish the feasibility of spatial transcriptomics for intraoperative human muscle biopsies.
To create a framework for identifying gene expression signatures linked to reinnervation outcomes.

Main Methods:

Intraoperative upper-extremity muscle biopsies were collected 5 months post-traumatic brachial plexus injury.
Biopsies were flash-frozen and processed using the 10x Genomics Visium HD platform for high-resolution spatial transcriptomics.
Quality control confirmed high RNA integrity and transcript detection at 8 µm resolution.

Main Results:

Genes crucial for neuromuscular junction formation, degeneration, and regeneration were identified.
These genes exhibited fiber-type-specific expression patterns at subcellular resolution.
Analysis utilized complementary approaches in Seurat and Loupe Browser.

Conclusions:

Spatial transcriptomics is feasible in human muscle tissue.
Baseline gene-expression signatures associated with nerve injury and recovery were established.
This study provides a foundation for identifying biomarkers for successful reinnervation and enhanced nerve-repair strategies.