Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation
Summary: Mapping the genomic locations of chromatin-associated proteins, such as transcription factors and histone modifications, is key to understanding the mechanisms of transcriptional regulation. ChIPmentation offers a simple and robust way of investigating the genomic binding sites of a protein...
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2020-12-01
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doaj-f20c116c2c044bbbb9f46061984837072020-12-21T04:49:05ZengElsevierSTAR Protocols2666-16672020-12-0113100187Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentationWei Xu0Ying Ye1Andrew D. Sharrocks2Wensheng Zhang3Xi Chen4Department of Biology, Southern University of Science and Technology, Shenzhen, Guangdong 518055, ChinaCam-Su Genomic Resource Center, Soochow University, Suzhou 215123, ChinaFaculty of Biology, Medicine and Health, University of Manchester, Oxford Rd, Manchester M13 9PL, UKCam-Su Genomic Resource Center, Soochow University, Suzhou 215123, China; Corresponding authorDepartment of Biology, Southern University of Science and Technology, Shenzhen, Guangdong 518055, China; Corresponding authorSummary: Mapping the genomic locations of chromatin-associated proteins, such as transcription factors and histone modifications, is key to understanding the mechanisms of transcriptional regulation. ChIPmentation offers a simple and robust way of investigating the genomic binding sites of a protein using relatively low-input material. Here, we present a detailed protocol for the key steps that lead to a successful ChIPmentation experiment, as well as a quick analysis pipeline to examine the data.For complete details on the use and execution of this protocol, please refer to Schmidl et al. (2015). For example data produced by this protocol, please refer to Henriksson et al. (2019) and Zhang et al. (2019).http://www.sciencedirect.com/science/article/pii/S266616672030174XGenomicsSequencingChIPseqChromatin immunoprecipitation (ChIP) |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Wei Xu Ying Ye Andrew D. Sharrocks Wensheng Zhang Xi Chen |
spellingShingle |
Wei Xu Ying Ye Andrew D. Sharrocks Wensheng Zhang Xi Chen Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation STAR Protocols Genomics Sequencing ChIPseq Chromatin immunoprecipitation (ChIP) |
author_facet |
Wei Xu Ying Ye Andrew D. Sharrocks Wensheng Zhang Xi Chen |
author_sort |
Wei Xu |
title |
Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation |
title_short |
Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation |
title_full |
Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation |
title_fullStr |
Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation |
title_full_unstemmed |
Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation |
title_sort |
genome-wide interrogation of protein-dna interactions in mammalian cells using chipmentation |
publisher |
Elsevier |
series |
STAR Protocols |
issn |
2666-1667 |
publishDate |
2020-12-01 |
description |
Summary: Mapping the genomic locations of chromatin-associated proteins, such as transcription factors and histone modifications, is key to understanding the mechanisms of transcriptional regulation. ChIPmentation offers a simple and robust way of investigating the genomic binding sites of a protein using relatively low-input material. Here, we present a detailed protocol for the key steps that lead to a successful ChIPmentation experiment, as well as a quick analysis pipeline to examine the data.For complete details on the use and execution of this protocol, please refer to Schmidl et al. (2015). For example data produced by this protocol, please refer to Henriksson et al. (2019) and Zhang et al. (2019). |
topic |
Genomics Sequencing ChIPseq Chromatin immunoprecipitation (ChIP) |
url |
http://www.sciencedirect.com/science/article/pii/S266616672030174X |
work_keys_str_mv |
AT weixu genomewideinterrogationofproteindnainteractionsinmammaliancellsusingchipmentation AT yingye genomewideinterrogationofproteindnainteractionsinmammaliancellsusingchipmentation AT andrewdsharrocks genomewideinterrogationofproteindnainteractionsinmammaliancellsusingchipmentation AT wenshengzhang genomewideinterrogationofproteindnainteractionsinmammaliancellsusingchipmentation AT xichen genomewideinterrogationofproteindnainteractionsinmammaliancellsusingchipmentation |
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1724375539227033600 |