FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C

The organization of chromatin structure plays a crucial role in gene expression, DNA replication, and repair. Chromatin alterations influence gene expression, and modifications could be associated with genomic instability in the cells during aging or diseases. Here, we provide a modified protocol to...

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Autores principales: Eremenko, Ekaterina, Golova, Anastasia, Stein, Daniel, Einav, Monica, Khrameeva, Ekaterina, Toiber, Debra
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Protocol
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8283150/
https://www.ncbi.nlm.nih.gov/pubmed/34308377
http://dx.doi.org/10.1016/j.xpro.2021.100643
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author Eremenko, Ekaterina
Golova, Anastasia
Stein, Daniel
Einav, Monica
Khrameeva, Ekaterina
Toiber, Debra
author_facet Eremenko, Ekaterina
Golova, Anastasia
Stein, Daniel
Einav, Monica
Khrameeva, Ekaterina
Toiber, Debra
author_sort Eremenko, Ekaterina
collection PubMed
description The organization of chromatin structure plays a crucial role in gene expression, DNA replication, and repair. Chromatin alterations influence gene expression, and modifications could be associated with genomic instability in the cells during aging or diseases. Here, we provide a modified protocol to isolate fixed neuronal nuclei from a single mouse cortex to investigate the spatial organization of chromatin structure on a genome-wide scale by ATAC-seq (the assay for transposase-accessible chromatin with high-throughput sequencing) and chromatin conformation by Hi-C (high-throughput chromosome conformation capture).
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spelling pubmed-82831502021-07-22 FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C Eremenko, Ekaterina Golova, Anastasia Stein, Daniel Einav, Monica Khrameeva, Ekaterina Toiber, Debra STAR Protoc Protocol The organization of chromatin structure plays a crucial role in gene expression, DNA replication, and repair. Chromatin alterations influence gene expression, and modifications could be associated with genomic instability in the cells during aging or diseases. Here, we provide a modified protocol to isolate fixed neuronal nuclei from a single mouse cortex to investigate the spatial organization of chromatin structure on a genome-wide scale by ATAC-seq (the assay for transposase-accessible chromatin with high-throughput sequencing) and chromatin conformation by Hi-C (high-throughput chromosome conformation capture). Elsevier 2021-07-09 /pmc/articles/PMC8283150/ /pubmed/34308377 http://dx.doi.org/10.1016/j.xpro.2021.100643 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Eremenko, Ekaterina
Golova, Anastasia
Stein, Daniel
Einav, Monica
Khrameeva, Ekaterina
Toiber, Debra
FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title_full FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title_fullStr FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title_full_unstemmed FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title_short FACS-based isolation of fixed mouse neuronal nuclei for ATAC-seq and Hi-C
title_sort facs-based isolation of fixed mouse neuronal nuclei for atac-seq and hi-c
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8283150/
https://www.ncbi.nlm.nih.gov/pubmed/34308377
http://dx.doi.org/10.1016/j.xpro.2021.100643
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