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Spatial-Omics Methods and Applications.

作者信息

Kulasinghe Arutha, Berrell Naomi, Donovan Meg L, Nilges Benedikt S

机构信息

Frazer Institute, Faculty of Medicine, University of Queensland, Brisbane, QLD, Australia.

Queensland Spatial Biology Centre, Wesley Research Institute, The Wesley Hospital, Auchenflower, QLD, Australia.

出版信息

Methods Mol Biol. 2025;2880:101-146. doi: 10.1007/978-1-0716-4276-4_5.


DOI:10.1007/978-1-0716-4276-4_5
PMID:39900756
Abstract

Traditional tissue profiling approaches have evolved from bulk studies to single-cell analysis over the last decade; however, the spatial context in tissues and microenvironments has always been lost. Over the last 5 years, spatial technologies have emerged that enabled researchers to investigate tissues in situ for proteins and transcripts without losing anatomy and histology. The field of spatial-omics enables highly multiplexed analysis of biomolecules like RNAs and proteins in their native spatial context-and has matured from initial proof-of-concept studies to a thriving field with widespread applications from basic research to translational and clinical studies. While there has been wide adoption of spatial technologies, there remain challenges with the standardization of methodologies, sample compatibility, throughput, resolution, and ease of use. In this chapter, we discuss the current state of the field and highlight technological advances and limitations.

摘要

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本文引用的文献

[1]
scGIST: gene panel design for spatial transcriptomics with prioritized gene sets.

Genome Biol. 2024-2-26

[2]
In situ single-cell profiling sheds light on IFI27 localisation during SARS-CoV-2 infection.

EBioMedicine. 2024-3

[3]
Multiplex protein imaging in tumour biology.

Nat Rev Cancer. 2024-3

[4]
Tunable PhenoCycler imaging of the murine pre-clinical tumour microenvironments.

Cell Biosci. 2024-2-4

[5]
Seven technologies to watch in 2024.

Nature. 2024-1

[6]
A Noninvasive Approach to Evaluate Tumor Immune Microenvironment and Predict Outcomes in Hepatocellular Carcinoma.

Phenomics. 2023-12-8

[7]
Spatiotemporal Visualization of Paraquat Distribution, Toxicokinetics, and Its Detoxification in Zebrafish Using Matrix-Assisted Laser Desorption Ionization Mass Spectrometry Imaging.

Chem Res Toxicol. 2024-2-19

[8]
Presence of onco-fetal neighborhoods in hepatocellular carcinoma is associated with relapse and response to immunotherapy.

Nat Cancer. 2024-1

[9]
Multimodal analytical tools for the molecular and elemental characterisation of lesions in brain tissue of multiple sclerosis patients.

Talanta. 2024-4-1

[10]
Multiomic spatial landscape of innate immune cells at human central nervous system borders.

Nat Med. 2024-1

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