دورية أكاديمية
Histone deacetylase inhibitor-based chromatin precipitation for identification of targeted genomic loci.
| العنوان: | Histone deacetylase inhibitor-based chromatin precipitation for identification of targeted genomic loci. |
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| المؤلفون: | Hanigan TW; Department of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, University of Illinois, 833 South Wood Street, Chicago, IL 60612, USA., Danes JM; Department of Physiology and Biophysics, College of Medicine, University of Illinois, 835 S. Wolcott Street, Chicago, IL 60612, USA., Taha TY; Department of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, University of Illinois, 833 South Wood Street, Chicago, IL 60612, USA., Frasor J; Department of Physiology and Biophysics, College of Medicine, University of Illinois, 835 S. Wolcott Street, Chicago, IL 60612, USA., Petukhov PA; Department of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, University of Illinois, 833 South Wood Street, Chicago, IL 60612, USA. |
| المصدر: | Journal of biological methods [J Biol Methods] 2018; Vol. 5 (1). |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: [POL Scientific, LLC] Country of Publication: United States NLM ID: 101639022 Publication Model: Print Cited Medium: Print ISSN: 2326-9901 (Print) Linking ISSN: 23269901 NLM ISO Abbreviation: J Biol Methods Subsets: PubMed not MEDLINE |
| أسماء مطبوعة: | Original Publication: [San Francisco, CA] : [POL Scientific, LLC], [2014]- |
| مستخلص: | Histone deacetylase (HDAC) catalyzes the removal of acetyl marks from histones, effectively regulating gene expression. Genome wide chromatin immunoprecipitation (ChIP) studies have shown HDACs are present on numerous active and repressed genes. However, HDAC inhibitors (HDACi) only regulate a small subset of this population in a cell type dependent fashion. To determine genomic locations directly targeted by HDACi, we developed a chromatin precipitation method using a photoreactive HDAC inhibitor probe (photomate). We validate this method by analyzing several canonical HDACi regulated genes, CDKN1A and FOSL1, and compare it to traditional ChIP using HDAC1 antibodies. We show that HDACi target HDACs bound at the promoter regions but not gene bodies, differing from HDAC1 antibody-based ChIP in the case of CDKN1A. This approach is anticipated to be useful for genome wide studies to identify the subset of genes directly regulated by an HDACi in a given cell type. Competing Interests: Competing interests: The authors have declared that no competing interests exist. |
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| معلومات مُعتمدة: | R01 CA131970 United States CA NCI NIH HHS; R01 HL130760 United States HL NHLBI NIH HHS; R21 CA183627 United States CA NCI NIH HHS |
| فهرسة مساهمة: | Keywords: chromatin immunoprecipitation; histone deacetylase; photoreactive probes |
| تواريخ الأحداث: | Date Created: 20180424 Latest Revision: 20201001 |
| رمز التحديث: | 20221213 |
| مُعرف محوري في PubMed: | PMC5909381 |
| DOI: | 10.14440/jbm.2018.216 |
| PMID: | 29682593 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 2326-9901 |
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| DOI: | 10.14440/jbm.2018.216 |