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TranscriptomicsThe Nucleosome Landscape of P. falciparum Reveals Chromatin Architecture and Dynamics of Regulatory Sequences
In eukaryotes, the chromatin architecture has a pivotal role in regulating all DNA-related processes. For P. falciparum, the causative agent of human malaria, the nucleosome landscape of the extremely AT-rich intergenic regulatory regions is largely unexplored. With the aid of a highly controlled MN...
ORGANISM(S): Plasmodium falciparum 
2015-11-25 | E-GEOD-66185 | biostudies-arrayexpress
GenomicsNucleosome Positioning Dynamics Through the Yeast Metabolic Cycle
We present Micrococcal Nuclease digestion maps of S. cerevisiae through the progression of the Yeast Metabolic Cycle. We demonstrate that nucleosome positions at many promoters are dynamic, and remodeling events at promoters have significant consequences with respect to gene expression. Examination ...
ORGANISM(S): Saccharomyces cerevisiae 
2016-03-15 | E-GEOD-77631 | biostudies-arrayexpress
TranscriptomicsDynamic changes to nucleosome occupancy and genomic expression in yeast responding to oxidative stress
This SuperSeries is composed of the following subset Series: GSE30897: Nucleosome occupancy in yeast BY4741and a strain lacking MSN2 and MSN4 responding to 20 min treatment with 0.4mM H2O2 GSE30898: Msn2p occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min) GSE30899: Gene...
ORGANISM(S): Saccharomyces cerevisiae S288c 
2012-06-17 | E-GEOD-30901 | biostudies-arrayexpress
ProteomicsCrosslinking mass spectrometry of the p300 catalytic core complexed with the nucleosome
p300 is a histone acetyltransferase that associates with crucial biological processes. p300 acetylates all four histones in the nucleosome, a basic unit of chromatin, and alters chromatin structure and dynamics. In this study, we performed structural and biochemical analysis to understand the nucleo...
ORGANISM(S): Homo Sapiens (human) 
2022-06-29 | PXD033804 | JPOST Repository
GenomicsNucleosome occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min)
Numerous factors have been implicated in regulating gene expression changes, including changes to nucleosome occupancy. Here we followed dynamic changes to nucleosome occupancy, gene expression and DNA binding of the transcription factor Msn2p genome-wide in yeast cells responding to hydrogen perox...
ORGANISM(S): Saccharomyces cerevisiae S288c 
2012-06-18 | E-GEOD-30900 | biostudies-arrayexpress
TranscriptomicsNucleosome mapping in Saccharomyces cerevisiae in different conditions
This experiment aims to map nucleosome positions and comparison of the same in WT NORMAL GROWTH vs WT-NUTRIENT STARVATION/isw1∆2∆ MUTANT/rsc4-∆4 MUTANT in Saccharomyces cerevisiae using a custom designed tiling array on Agilent plat form. The corresponding platform is submitted to GEO under Geo-ID...
ORGANISM(S): Saccharomyces cerevisiae 
2013-06-21 | E-GEOD-39802 | biostudies-arrayexpress
GenomicsNucleosome dynamics specifies genome-wide binding of the male germ cell gene regulator CTCFL and of CTCF
This SuperSeries is composed of the following subset Series: GSE34091: Nucleosome dynamics specifies genome-wide binding of the male germ cell gene regulator CTCFL and of CTCF [Mouse430_2 Expression] GSE34092: Nucleosome dynamics specifies genome-wide binding of the male germ cell gene regulator CTC...
ORGANISM(S): Mus musculus 
2012-07-24 | E-GEOD-34093 | 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
GenomicsDynamically reorganized chromatin is the key for the reprogramming of somatic cells to pluripotent cells
We investigated genome-wide nucleosome coverage and histone methylation occupancies in somatic MEFs, intermediate pre-iPSCs and fully reprogrammed iPSCs. We found that nucleosome occupancies increased in promoter regions and decreased in intergenic regions in pre-iPSCs and then recover to an interme...
ORGANISM(S): Mus musculus 
2015-12-13 | E-GEOD-60627 | biostudies-arrayexpress
GenomicsMsn2-mediated nucleosome remodeling dynamics
The aim of this experiment was to determine, using MNAse-Seq, how nucleosomes get remodeled during an Msn2 activation timecourse genome-wide. Diploid strain EY2807/ASH79 with genotype TPK1M164G TPK2M147G TPK3M165G msn4::TRP1/LEU2 MSN2-mCherry NHP6a-iRFP::kanMX was used. This strain is PKAas, so upon...
ORGANISM(S): Saccharomyces cerevisiae 
2013-10-12 | E-MTAB-1950 | biostudies-arrayexpress
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