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GenomicsEffects of DNA Methylation on Nucleosome Stability
Methylation of DNA at CpG dinucleotides represents one of the most important epigenetic mechanisms involved in the control of gene expression in vertebrate cells. In this report, we conducted high-throughput nucleosome reconstitution experiments on 572 KB of human DNA and 668 KB of mouse DNA that wa...
ORGANISM(S): Mus musculus 
2013-01-28 | E-GEOD-37224 | biostudies-arrayexpress
GenomicsEffects of Histone H3 depletion on nucleosome occupancy and positioning through the S. cerevisiae genome [single-end MNase-seq]
Experiments performed over the past three decades have shown that nucleosomes are transcriptional repressors. In Saccharomyces cerevisiae, depletion of histone H4 results in the genome-wide transcriptional de-repression of hundreds genes. The mechanism of de-repression is hypothesized to be rooted d...
ORGANISM(S): Saccharomyces cerevisiae 
2012-09-26 | E-GEOD-29291 | biostudies-arrayexpress
TranscriptomicsNucleosome loss leads to global transcriptional upregulation and genomic instability during yeast replicative aging
All eukaryotic cells divide a finite number of times, termed replicative aging, but the reason for this is not clear. Consistent with the decreased total histone protein levels in aged Saccharomyces cerevisiae, which is a cause of aging (1), we find that nucleosome occupancy decreases 50% across the...
ORGANISM(S): Saccharomyces cerevisiae 
2014-02-26 | E-GEOD-47023 | biostudies-arrayexpress
TranscriptomicsEffects of Histone H3 depletion on nucleosome occupancy and positioning through the S. cerevisiae genome [RNA_seq]
Experiments performed over the past three decades have shown that nucleosomes are transcriptional repressors. In Saccharomyces cerevisiae, depletion of histone H4 results in the genome-wide transcriptional de-repression of hundreds genes. The mechanism of de-repression is hypothesized to be rooted d...
ORGANISM(S): Saccharomyces cerevisiae 
2012-09-26 | E-GEOD-29293 | biostudies-arrayexpress
TranscriptomicsMNase-seq data in 4 modified strains of Saccharomyces cerevisiae, treated or not with 10-Phenanthroline
Effect of gene-length modification on Nucleosome periodicity in G1 synchronized cells, treated or untreated with 10-phenanthroline.
ORGANISM(S): Saccharomyces cerevisiae 
2024-09-30 | E-MTAB-13613 | biostudies-arrayexpress
GenomicsEffects of DNA Methylation on Nucleosome Stability
Effects of DNA Methylation on Nucleosome Stability
PRJNA158949 | ENA
GenomicsHrp3 controls nucleosome positioning to suppress non-coding transcription in eu- and heterochromatin [MNase-Seq]
We report that the Schizosaccharomyces pombe CHD remodeler, Hrp3, is a global regulator that drives higher-order chromatin structure and genomic stability. The loss of Hrp3 resulted in nucleosome perturbation across the chromosome, and the production of antisense transcripts in the hrp3M-bM-^HM-^F c...
ORGANISM(S): Schizosaccharomyces pombe 
2012-10-02 | E-GEOD-40451 | biostudies-arrayexpress
TranscriptomicsCATCH-IT method for measuring nucleosome turnover
Direct measurement of nucleosome turnover dynamics by using co-translational incorporation of the methionine (Met) surrogate azidohomoalaine (Aha) into proteins and subsequent ligation of biotin to Aha-containing proteins through the [3+2] cycloaddition reaction between the azide group of Aha and an...
ORGANISM(S): Drosophila melanogaster 
2010-05-27 | E-GEOD-19788 | biostudies-arrayexpress
GenomicsShelterin and subtelomeric DNA sequences control nucleosome maintenance and genome stability
Shelterin and subtelomeric DNA sequences control nucleosome maintenance and genome stability
PRJNA497473 | ENA
GenomicsImpacts of DNA methylation on H2A.Z deposition and nucleosome stability
Impacts of DNA methylation on H2A.Z deposition and nucleosome stability
PRJNA1252730 | ENA
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