Protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics

Yujia Jiang; Ruikang Li; Yixin Li; Jing Feng; Jun Xia; Runzhi Huang; Yanwen Xu; Zhentao Zhou; Wei Zhang; Sujie Xie; Shaozhong Ji; Jufang Zhang; Mirna Perez-Moreno; Xiaoyu Wei; Chuanyu Liu

doi:10.1016/j.xpro.2024.103254

Protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics

Yujia Jiang, Ruikang Li, Yixin Li, Jing Feng, Jun Xia, Runzhi Huang, Yanwen Xu, Zhentao Zhou, Wei Zhang, Sujie Xie, Shaozhong Ji, Jufang Zhang, Mirna Perez-Moreno, Xiaoyu Wei^*, Chuanyu Liu

^*Corresponding author af dette arbejde

Cellebiologi og Fysiologi

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › peer review

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Abstract

Spatial transcriptomics enables a single-cell resolution view of gene expression patterns in tissues, providing insight into their biological functions. However, applying this approach to the skin presents inherent challenges. Here, we present a protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics. We describe steps for sample preparation, embedding, acquisition of frozen slices, RNA quality control, tissue mounting, fixation, staining, and imaging. We then detail procedures for permeabilization, reverse transcription, and cDNA collection.

Originalsprog	Engelsk
Artikelnummer	103254
Tidsskrift	STAR Protocols
Vol/bind	5
Udgave nummer	3
Antal sider	22
ISSN	2666-1667
DOI	https://doi.org/10.1016/j.xpro.2024.103254
Status	Udgivet - 2024

Bibliografisk note

Publisher Copyright:
© 2024 The Authors

Adgang til dokumentet

10.1016/j.xpro.2024.103254Licens: CC BY-NC-ND

FulltextForlagets udgivne version, 7,87 MBLicens: CC BY-NC-ND

Citationsformater

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title = "Protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics",

abstract = "Spatial transcriptomics enables a single-cell resolution view of gene expression patterns in tissues, providing insight into their biological functions. However, applying this approach to the skin presents inherent challenges. Here, we present a protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics. We describe steps for sample preparation, embedding, acquisition of frozen slices, RNA quality control, tissue mounting, fixation, staining, and imaging. We then detail procedures for permeabilization, reverse transcription, and cDNA collection. For complete details on the use and execution of this protocol, please refer to Chen et al.1",

keywords = "Genetics, Genomics, Model Organisms, Molecular Biology",

author = "Yujia Jiang and Ruikang Li and Yixin Li and Jing Feng and Jun Xia and Runzhi Huang and Yanwen Xu and Zhentao Zhou and Wei Zhang and Sujie Xie and Shaozhong Ji and Jufang Zhang and Mirna Perez-Moreno and Xiaoyu Wei and Chuanyu Liu",

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doi = "10.1016/j.xpro.2024.103254",

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journal = "STAR Protocols",

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TY - JOUR

T1 - Protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics

AU - Jiang, Yujia

AU - Li, Ruikang

AU - Li, Yixin

AU - Feng, Jing

AU - Xia, Jun

AU - Huang, Runzhi

AU - Xu, Yanwen

AU - Zhou, Zhentao

AU - Zhang, Wei

AU - Xie, Sujie

AU - Ji, Shaozhong

AU - Zhang, Jufang

AU - Perez-Moreno, Mirna

AU - Wei, Xiaoyu

AU - Liu, Chuanyu

PY - 2024

Y1 - 2024

N2 - Spatial transcriptomics enables a single-cell resolution view of gene expression patterns in tissues, providing insight into their biological functions. However, applying this approach to the skin presents inherent challenges. Here, we present a protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics. We describe steps for sample preparation, embedding, acquisition of frozen slices, RNA quality control, tissue mounting, fixation, staining, and imaging. We then detail procedures for permeabilization, reverse transcription, and cDNA collection. For complete details on the use and execution of this protocol, please refer to Chen et al.1

AB - Spatial transcriptomics enables a single-cell resolution view of gene expression patterns in tissues, providing insight into their biological functions. However, applying this approach to the skin presents inherent challenges. Here, we present a protocol for preparing mammalian skin samples encompassing hair follicles for spatial transcriptomics. We describe steps for sample preparation, embedding, acquisition of frozen slices, RNA quality control, tissue mounting, fixation, staining, and imaging. We then detail procedures for permeabilization, reverse transcription, and cDNA collection. For complete details on the use and execution of this protocol, please refer to Chen et al.1

KW - Genetics

KW - Genomics

KW - Model Organisms

KW - Molecular Biology

U2 - 10.1016/j.xpro.2024.103254

DO - 10.1016/j.xpro.2024.103254

M3 - Journal article

C2 - 39146191

AN - SCOPUS:85201290902

SN - 2666-1667

VL - 5

JO - STAR Protocols

JF - STAR Protocols

IS - 3

M1 - 103254

ER -