Abstract
| Original language | English |
|---|---|
| Title of host publication | Plant Chromatin Dynamics |
| Subtitle of host publication | Methods and Protocols |
| Publisher | Humana Press Inc. |
| Pages | 167-181 |
| ISBN (Electronic) | 9781493973187 |
| ISBN (Print) | 9781493973170 |
| DOIs | |
| Publication status | Published - 2018 |
Publication series
| Name | Methods in Molecular Biology |
|---|---|
| Volume | 1675 |
| ISSN (Print) | 1064-3745 |
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Keywords
- Chromatin
- MNase digestion
- MNase-seq
- Next-generation sequencing
- Nucleosome occupancy
Cite this
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Profiling nucleosome occupancy by MNase-seq : Experimental protocol and computational analysis. / Pajoro, Alice; Muiño, Jose M.; Angenent, Gerco C.; Kaufmann, Kerstin.
Plant Chromatin Dynamics: Methods and Protocols. Humana Press Inc., 2018. p. 167-181 (Methods in Molecular Biology; Vol. 1675).Research output: Chapter in Book/Report/Conference proceeding › Chapter
TY - CHAP
T1 - Profiling nucleosome occupancy by MNase-seq
T2 - Experimental protocol and computational analysis
AU - Pajoro, Alice
AU - Muiño, Jose M.
AU - Angenent, Gerco C.
AU - Kaufmann, Kerstin
PY - 2018
Y1 - 2018
N2 - Nucleosomes are the basic repeating units of eukaryotic chromatin. They play important roles in chromatin compaction and gene regulation. Therefore, it is important to profile the in vivo locations of nucleosomes in the genome. Here we illustrate how to profile nucleosome occupancy at genome-wide scale using micrococcal nuclease (MNase) digestion combined with high throughput Illumina sequencing (MNase-seq). Nucleosome-associated DNA is relatively insensitive to digestion by micrococcal nuclease (MNase). Upon mild MNase treatment, the undigested nucleosomal DNA can be purified and sequenced allowing a precise localization of in vivo nucleosomes at a genome-wide level.
AB - Nucleosomes are the basic repeating units of eukaryotic chromatin. They play important roles in chromatin compaction and gene regulation. Therefore, it is important to profile the in vivo locations of nucleosomes in the genome. Here we illustrate how to profile nucleosome occupancy at genome-wide scale using micrococcal nuclease (MNase) digestion combined with high throughput Illumina sequencing (MNase-seq). Nucleosome-associated DNA is relatively insensitive to digestion by micrococcal nuclease (MNase). Upon mild MNase treatment, the undigested nucleosomal DNA can be purified and sequenced allowing a precise localization of in vivo nucleosomes at a genome-wide level.
KW - Chromatin
KW - MNase digestion
KW - MNase-seq
KW - Next-generation sequencing
KW - Nucleosome occupancy
U2 - 10.1007/978-1-4939-7318-7_11
DO - 10.1007/978-1-4939-7318-7_11
M3 - Chapter
SN - 9781493973170
T3 - Methods in Molecular Biology
SP - 167
EP - 181
BT - Plant Chromatin Dynamics
PB - Humana Press Inc.
ER -