@inbook{436bf040de6a4a6bb8fb20bba12f6a95,
title = "Characterization of Plant 3D Chromatin Architecture, In Situ Hi-C Library Preparation, and Data Analysis",
abstract = "In the mammalian nucleus, 3D organization of the chromatin plays an important role in the regulation of gene expression. Similar chromatin structures such as A/B compartments, domains, and loops have now been found in plants, yet their biological function remained to be further elucidated. In this chapter, we present a detailed protocol for examining genome-wide chromatin interaction using in situ Hi-C optimized for plant tissues. We also provide a step-by-step bioinformatic workflow for Hi-C sequencing data alignment, and subsequent compartment, domain, and chromatin loop identification.",
keywords = "A/B compartment, Domain, In situ Hi-C, Local compartment, Loop, Plant chromatin 3D architecture",
author = "Pengfei Dong and Silin Zhong",
note = "Publisher Copyright: {\textcopyright} 2020, Springer Science+Business Media, LLC, part of Springer Nature.",
year = "2020",
doi = "10.1007/978-1-0716-0179-2\_11",
language = "English",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "147--157",
booktitle = "Methods in Molecular Biology",
}