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ProteomicsChromID reveals the proteome composition of key chromatin states in murine stem cells
Chromatin modifications instruct genome function through spatiotemporal recruitment of regulatory factors to the genome. However, how these modifications define the proteome composition at distinct chromatin states remains to be fully characterized. Here, we made use of natural protein domains as mo...
ORGANISM(S): Mus musculus (Mouse) 
2020-04-30 | PXD014483 | Pride
Chromatin Systems biology Chromatin proteomics Epigenetics Synthetic biology 
ProteomicsDNA sequence and chromatin modifiers cooperate to confer epigenetic bistability at imprinting control regions
DNA methylation is essential for embryonic development and implicated in the regulation of genomic imprinting. Genomic imprinting is established in the germline through parent-specific methylation of distinct cis-regulatory DNA sequences, called imprinting control regions (ICRs). Which factors bind ...
ORGANISM(S): Mus musculus (Mouse) 
2023-03-10 | PXD034918 | Pride
Epigenetic Dna methylation Genomic imprinting 
ProteomicsStoichiometry of MBD2 vs. MBD3-NuRD
To obtain a comprehensive and quantitative view on MBD2 vs MBD3-NuRD complex stoichiometry, we performed biotin co-immunoprecipitations in Mbd3 KO ES cells expressing either biotin-tagged MBD2a or MBD3a and identified known NuRD complex members using label-free mass spectrometry (Supplementary Fig. ...
ORGANISM(S): Mus musculus (Mouse) 
2023-06-30 | PXD042407 | Pride
Embryonic stem cells Nurd complex 
TranscriptomicsEpigenetic mutant gene expression analysis_2
The aim of this project is to identify endogenous targets of yet unidentified epigenetic mutants. Mutants were discovered in a forward genetic approach using T-DNA insertion mutagenesis. Pools of 25 seedlings, grown in-vitro, will be used to examine changes in gene expression. 9 samples were used in...
ORGANISM(S): Arabidopsis thaliana 
2009-12-09 | E-GEOD-19269 | biostudies-arrayexpress
TranscriptomicsEpigenetic mutant gene expression analysis
The aim of this project is to identify endogenous targets of yet unidentified epigenetic mutants. Mutants were discovered in a forward genetic approach using T-DNA insertion mutagenesis.Pools of each 50 seedlings, grown in-vitro, will be used to examine changes in gene-expression. Keywords: Express...
ORGANISM(S): Arabidopsis thaliana 
2009-11-17 | E-GEOD-18977 | biostudies-arrayexpress
GenomicsGenomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation
DNA methylation is an epigenetic modification associated with transcriptional repression of promoters and is essential for mammalian development. Establishment of DNA methylation is mediated by the de novo DNA methyltransferases DNMT3A and DNMT3B, whereas DNMT1 ensures maintenance of methylation thr...
ORGANISM(S): Mus musculus 
2015-01-20 | E-GEOD-57411 | biostudies-arrayexpress
GenomicsGenomic profiling of DNA methyltransferases reveals a role for DNMT3B in genic methylation
DNA methylation is an epigenetic modification associated with transcriptional repression of promoters and is essential for mammalian development. Establishment of DNA methylation is mediated by the de novo DNA methyltransferases DNMT3A and DNMT3B, whereas DNMT1 ensures maintenance of methylation thr...
ORGANISM(S): Mus musculus 
2015-01-20 | E-GEOD-57412 | biostudies-arrayexpress
TranscriptomicsAnalysis of polyploidy-associated transcriptional gene silencing (paTGS) mutants
A case of transcriptional gene silencing, originally observed in tetraploid Arabidopsis plants, created an epiallele resistant to many mutations or inhibitor treatments that activate other suppressed genes. This raised the question about the molecular basis of this extreme stability. A combination o...
ORGANISM(S): Arabidopsis thaliana 
2010-02-01 | E-GEOD-17496 | biostudies-arrayexpress
TranscriptomicsGenomic prevalence of heterochromatic H3K9me2 and transcription do not discriminate pluripotent from terminally differentiated cells (ChIP-chip)
Cellular differentiation entails reprogramming of the transcriptome from a pluripotent to a unipotent fate. This process was suggested to coincide with a global increase of repressive heterochromatin, which results in a reduction of transcriptional plasticity and potential. Here we report the dynami...
ORGANISM(S): Mus musculus 
2011-06-21 | E-GEOD-27724 | biostudies-arrayexpress
TranscriptomicsGenomic prevalence of heterochromatic H3K9me2 and transcription do not discriminate pluripotent from terminally differentiated cells (RNA-seq)
Cellular differentiation entails reprogramming of the transcriptome from a pluripotent to a unipotent fate. This process was suggested to coincide with a global increase of repressive heterochromatin, which results in a reduction of transcriptional plasticity and potential. Here we report the dynami...
ORGANISM(S): Mus musculus 
2011-06-21 | E-GEOD-27843 | biostudies-arrayexpress
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