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An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line
Chromosome conformation capture combined with high-throughput sequencing (4C-seq) is a powerful tool to map genomic DNA regions that communicate with a specific locus of interest such as functional single-nucleotide polymorphism (SNPs)-containing regions. This protocol describes detailed steps to pe...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9043770/ https://www.ncbi.nlm.nih.gov/pubmed/35496794 http://dx.doi.org/10.1016/j.xpro.2022.101338 |
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author | Huang, Zhiqiang Wang, Cheng Treuter, Eckardt Fan, Rongrong |
author_facet | Huang, Zhiqiang Wang, Cheng Treuter, Eckardt Fan, Rongrong |
author_sort | Huang, Zhiqiang |
collection | PubMed |
description | Chromosome conformation capture combined with high-throughput sequencing (4C-seq) is a powerful tool to map genomic DNA regions that communicate with a specific locus of interest such as functional single-nucleotide polymorphism (SNPs)-containing regions. This protocol describes detailed steps to perform 4C-seq in mouse macrophage RAW264.7 cells, starting from the primer design based on cistrome and epigenome data, sample processing, and to the bioinformatics analysis. For complete details on the use and execution of this protocol, please refer to Huang et al. (2021). |
format | Online Article Text |
id | pubmed-9043770 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-90437702022-04-28 An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line Huang, Zhiqiang Wang, Cheng Treuter, Eckardt Fan, Rongrong STAR Protoc Protocol Chromosome conformation capture combined with high-throughput sequencing (4C-seq) is a powerful tool to map genomic DNA regions that communicate with a specific locus of interest such as functional single-nucleotide polymorphism (SNPs)-containing regions. This protocol describes detailed steps to perform 4C-seq in mouse macrophage RAW264.7 cells, starting from the primer design based on cistrome and epigenome data, sample processing, and to the bioinformatics analysis. For complete details on the use and execution of this protocol, please refer to Huang et al. (2021). Elsevier 2022-04-19 /pmc/articles/PMC9043770/ /pubmed/35496794 http://dx.doi.org/10.1016/j.xpro.2022.101338 Text en © 2022 The Author(s) https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Protocol Huang, Zhiqiang Wang, Cheng Treuter, Eckardt Fan, Rongrong An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title | An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title_full | An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title_fullStr | An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title_full_unstemmed | An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title_short | An optimized 4C-seq protocol based on cistrome and epigenome data in the mouse RAW264.7 macrophage cell line |
title_sort | optimized 4c-seq protocol based on cistrome and epigenome data in the mouse raw264.7 macrophage cell line |
topic | Protocol |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9043770/ https://www.ncbi.nlm.nih.gov/pubmed/35496794 http://dx.doi.org/10.1016/j.xpro.2022.101338 |
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