A cell-sorting-based protocol for cell cycle small-scale ChIP sequencing.

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Tytuł:: A cell-sorting-based protocol for cell cycle small-scale ChIP sequencing.
Autorzy:: Whetstine JR; Cancer Signaling and Epigenetics Program, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.; Cancer Epigenetics Institute, Fox Chase Cancer Center, Philadelphia, PA 19111, USA.
Van Rechem C; Stanford Medicine Department of Pathology, Stanford, CA 94305, USA.
Źródło:: STAR protocols [STAR Protoc] 2022 Mar 15; Vol. 3 (2), pp. 101243. Date of Electronic Publication: 2022 Mar 15 (Print Publication: 2022).
Typ publikacji:: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
Język:: English
Imprint Name(s):: Original Publication: [Cambridge, MA] : Cell Press, [2020]-
MeSH Terms:: Chromatin*/genetics
Chromatin Immunoprecipitation Sequencing*
Cell Cycle/genetics ; Chromatin Immunoprecipitation/methods ; Histone Code
References:: Cell Rep. 2021 Oct 5;37(1):109799. (PMID: 34610305)
Grant Information:: R01 GM097360 United States GM NIGMS NIH HHS; R35 GM144131 United States GM NIGMS NIH HHS; P30 CA006927 United States CA NCI NIH HHS
Contributed Indexing:: Keywords: Cell isolation; ChIPseq; Chromatin immunoprecipitation (ChIP); Flow Cytometry/Mass Cytometry; Molecular Biology
Substance Nomenclature:: 0 (Chromatin)
Entry Date(s):: Date Created: 20220321 Date Completed: 20220422 Latest Revision: 20221014
Update Code:: 20240105
PubMed Central ID:: PMC8931484
DOI:: 10.1016/j.xpro.2022.101243
PMID:: 35310076
: Czasopismo naukowe

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Classic approaches to characterizing cell cycle leverage chemicals or altered nucleotide pools, which could impact chromatin states at specific phases of the cell cycle. Such approaches could induce metabolic alterations and/or DNA damage, which could reshape protein recruitment and histone modifications. In this protocol, we describe ways to fix and sort cells across the cell cycle based on their DNA content. We further detail immunoprecipitation and library preparation, allowing analysis of the epigenome by chromatin immunoprecipitation sequencing (ChIP-seq) for small numbers of cells. For complete details on the use and execution of this protocol, please refer to Van Rechem et al. (2021).
Competing Interests: In the past year, J.R.W. has consulted for Qsonica (manufacturer of Q800R system). J.R.W. has served as a consultant or advisor for Salarius Pharmaceuticals, Daiichi Sankyo, Inc., and VYNE Therapeutics. J.R.W. has also received sponsored research from Salarius Pharmaceuticals. C.V.R. declares no competing interests.
(© 2022 The Author(s).)

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