A chromatin integration labelling method enables epigenomic profiling with lower input

Akihito Harada, Kazumitsu Maehara, Tetsuya Handa, Yasuhiro Arimura, Jumpei Nogami, Yoko Hayashi-Takanaka, Katsuhiko Shirahige, Hitoshi Kurumizaka, Hiroshi Kimura, Yasuyuki Ohkawa

研究成果: Contribution to journalArticle

20 引用 (Scopus)

抜粋

Chromatin plays a crucial role in gene regulation, and chromatin immunoprecipitation followed by sequencing (ChIP–seq) has been the standard technique for examining protein–DNA interactions across the whole genome. However, it is difficult to obtain epigenomic information from limited numbers of cells by ChIP–seq because of sample loss during chromatin preparation and inefficient immunoprecipitation. In this study, we established an immunoprecipitation-free epigenomic profiling method named chromatin integration labelling (ChIL), which enables the amplification of genomic sequences closely associated with the target molecules before cell lysis. Using ChIL followed by sequencing (ChIL–seq), we reliably detected the distributions of histone modifications and DNA-binding factors in 100–1,000 cells. In addition, ChIL–seq successfully detected genomic regions associated with histone marks at the single-cell level. Thus, ChIL–seq offers an alternative method to ChIP–seq for epigenomic profiling using small numbers of cells, in particular, those attached to culture plates and after immunofluorescence.

元の言語英語
ページ(範囲)287-296
ページ数10
ジャーナルNature Cell Biology
21
発行部数2
DOI
出版物ステータス出版済み - 2 1 2019

All Science Journal Classification (ASJC) codes

  • Cell Biology

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    Harada, A., Maehara, K., Handa, T., Arimura, Y., Nogami, J., Hayashi-Takanaka, Y., Shirahige, K., Kurumizaka, H., Kimura, H., & Ohkawa, Y. (2019). A chromatin integration labelling method enables epigenomic profiling with lower input. Nature Cell Biology, 21(2), 287-296. https://doi.org/10.1038/s41556-018-0248-3