期刊
NUCLEIC ACIDS RESEARCH
卷 42, 期 8, 页码 4934-4946出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gku165
关键词
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资金
- Spanish Ministry of Science and Innovation [BIO2012-32868, BIO2009-10964]
- Instituto de Salud Carlos III (INB)
- European Research Council (SimDNA project)
- Spanish Ministry of Science and Innovation [Consolider E-Science]
- Instituto de Salud Carlos III (INB-Genoma Espana)
- Instituto de Salud Carlos III (COMBIOMED RETICS)
- Fundacion Marcelino Botin
Nucleosome organization plays a key role in the regulation of gene expression. However, despite the striking advances in the accuracy of nucleosome maps, there are still severe discrepancies on individual nucleosome positioning and how this influences gene regulation. The variability among nucleosome maps, which precludes the fine analysis of nucleosome positioning, might emerge from diverse sources. We have carefully inspected the extrinsic factors that may induce diversity by the comparison of microccocal nuclease (MNase)-Seq derived nucleosome maps generated under distinct conditions. Furthermore, we have also explored the variation originated from intrinsic nucleosome dynamics by generating additional maps derived from cell cycle synchronized and asynchronous yeast cultures. Taken together, our study has enabled us to measure the effect of noise in nucleosome occupancy and positioning and provides insights into the underlying determinants. Furthermore, we present a systematic approach that may guide the standardization of MNase-Seq experiments in order to generate reproducible genome-wide nucleosome patterns.
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