Spatial transcriptomics and the anatomical pathologist: Molecular meets morphology

Author:

Pang Jia‐Min B1ORCID,Byrne David J1ORCID,Bergin Alice R T12,Caramia Franco12,Loi Sherene12,Gorringe Kylie L12,Fox Stephen B12ORCID

Affiliation:

1. Peter MacCallum Cancer Centre Melbourne VIC Australia

2. Sir Peter MacCallum Department of Oncology University of Melbourne Melbourne VIC Australia

Abstract

In recent years anatomical pathology has been revolutionised by the incorporation of molecular findings into routine diagnostic practice, and in some diseases the presence of specific molecular alterations are now essential for diagnosis. Spatial transcriptomics describes a group of technologies that provide up to transcriptome‐wide expression profiling while preserving the spatial origin of the data, with many of these technologies able to provide these data using a single tissue section. Spatial transcriptomics allows expression profiling of highly specific areas within a tissue section potentially to subcellular resolution, and allows correlation of expression data with morphology, tissue type and location relative to other structures. While largely still research laboratory‐based, several spatial transcriptomics methods have now achieved compatibility with formalin‐fixed paraffin‐embedded tissue (FFPE), allowing their use in diagnostic tissue samples, and with further development potentially leading to their incorporation in routine anatomical pathology practice. This mini review provides an overview of spatial transcriptomics methods, with an emphasis on platforms compatible with FFPE tissue, approaches to assess the data and potential applications in anatomical pathology practice.

Funder

Peter MacCallum Foundation

Publisher

Wiley

Subject

General Medicine,Histology,Pathology and Forensic Medicine

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