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| Status |
Public on Jan 01, 2018 |
| Title |
ACF1 regulates nucleosome spacing in Drosophila euchromatin [ChIP-seq] |
| Organism |
Drosophila melanogaster |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
The nature of chromatin as regular succession of nucleosomes has gained iconic status. The average nucleosome repeat length (NRL) determined by classical means serves as index for bulk chromatin of a given specimen. However, this value is dominated by regular heterochromatin since nucleosomal arrays are often not regular at individual single copy sequences. To obtain a measure for nucleosome regularity in euchromatin we subjected nucleosome dyad profiles to autocorrelation and spectral density analyses. This revealed variation in nucleosome regularity and NRL at different types of euchromatin and yielded a comprehensive catalog of regular phased nucleosome arrays (PNA). The absence of the nucleosome sliding factor ACF1 correlated with global loss of regularity in euchromatin and increased NRL and compromised phasing at a novel type of PNA. Our approach is generally applicable to characterize hallmarks of euchromatin organization.
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| |
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| Overall design |
ChIP-Seq in Drosophila melanogaster embryos
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| |
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| Contributor(s) |
Jain DS, Baldi S, Zabel A, Scheibe M, Butter F, Straub T, Becker PB |
| Citation(s) |
30392927 |
| |
| Submission date |
Aug 09, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Tobias Straub |
| E-mail(s) |
tstraub@med.uni-muenchen.de
|
| Organization name |
LMU Munich
|
| Department |
Biomedical Center, Bioinformatics
|
| Street address |
Großhadener Str. 9
|
| City |
Martinsried |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL19951 |
Illumina HiSeq 1500 (Drosophila melanogaster) |
|
| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE85407 |
ACF1 regulates nucleosome spacing in Drosophila euchromatin |
|
| Relations |
| BioProject |
PRJNA338341 |
| SRA |
SRP081180 |
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