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GenomicsCombinatorial DNA methylation codes at repetitive elements
Combinatorial DNA methylation codes at repetitive elements
PRJNA276976 | ENA
ProteomicsDefining the chromatin-associated protein landscapes on Trypanosoma brucei repetitive elements using synthetic TALE proteins
Kinetoplastids, such as Trypansoma brucei, are eukaryotes that likely separated from the main lineage at an exceptionally early point in evolution. Consequently, many aspects of kinetoplastid biology differ significantly from other eukaryotic model systems, including yeasts, plants, worms, flies and...
ORGANISM(S): Trypanosoma brucei 
2026-03-01 | PXD063130 | Pride
Kinetochore Chromatin-associated proteins Trypanosoma brucei brucei Repetitive elements 
TranscriptomicsExtensive demethylation of repetitive elements during seed development underlies gene imprinting
DNA methylation is an epigenetic mark associated with transposable element silencing and gene imprinting in flowering plants and mammals. In plants, imprinting occurs in the endosperm, which nourishes the embryo during seed development. We have profiled Arabidopsis DNA methylation genome-wide in the...
ORGANISM(S): Arabidopsis thaliana 
2009-06-12 | E-GEOD-14570 | biostudies-arrayexpress
TranscriptomicsChromatin dynamics and genome-wide profiling of repetitive elements during early mammalian embryogenesis.
We have used repetitive elements, including retrotransposons, as model loci to address how and when heterochromatin forms during development. High throughput RNA-sequencing using a Nano-CAGE protocol throughout early embryogenesis revealed that the expression of repetitive elements is abundant in...
ORGANISM(S): Mus musculus 
2013-01-27 | E-GEOD-39849 | biostudies-arrayexpress
TranscriptomicsMapping of meiotic double-strand break (DSB) sites and DSB factor association near repetitive DNA elements in S. cerevisiae
DNA double strand breaks (DSBs) in repetitive sequences are a potent source of genomic instability, due to the possibility of non-allelic homologous recombination (NAHR). Repetitive sequences are especially at risk during meiosis, when numerous programmed DSBs are introduced into the genome to initi...
ORGANISM(S): Saccharomyces cerevisiae 
2011-08-14 | E-GEOD-30073 | biostudies-arrayexpress
TranscriptomicsDNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements and chimaeric transcripts in mouse ES cells
DNA methylation and histone H3 lysine 9 trimethylation (H3K9me3) play important roles in silencing of genes and retroelements. However, a comprehensive comparison of genes and repetitive elements repressed by these pathways has not been reported. Here we show that in mouse embryonic stem cells (mESC...
ORGANISM(S): Mus musculus 
2011-05-21 | E-GEOD-29413 | biostudies-arrayexpress
ProteomicsCUT&Tag Overcomes Biases of ChIP and Establishes Chromatin Patterns for Repetitive Genomic Loci
Determining the genomic localization of chromatin features is an essential aspect of investigating gene expression control, and ChIP-Seq has long been the gold standard technique for interrogating chromatin landscapes. Recently, the development of alternative methods, such as CUT&Tag, have provided ...
ORGANISM(S): Mus musculus (Mouse) 
2025-08-26 | PXD067760 | Pride
Repetitive loci Mouse Ip-ms Chromatin Retrotransposons Chip 
TranscriptomicsTranscription profiling of mouse oocytes reveals abundant transcripts from retrotransposons are unstable
One physiological function proposed for RNA interference (RNAi) is to constrain expression of repetitive elements and thereby reduce the incidence of retrotransposition. Consistent with this model is that inhibiting the RNAi pathway results in an increase in expression of repetitive elements in pre...
ORGANISM(S): Mus musculus 
2008-06-13 | E-GEOD-4508 | biostudies-arrayexpress
GenomicsATRX tolerates activity-dependent histone H3 M-bM-^@M-^\methyl/phos switchingM-bM-^@M-^] to maintain repetitive element silencing in neurons
ATRX is a member of the SWI2/SNF2 family of chromatin remodeling proteins and primarily functions at heterochromatic loci via its recognition of M-bM-^@M-^XrepressiveM-bM-^@M-^Y histone modifications (e.g., H3K9me3). Despite significant roles for ATRX during normal neural development, as well as its...
ORGANISM(S): Mus musculus 
2015-01-02 | E-GEOD-64062 | biostudies-arrayexpress
GenomicsDefining the chromatin-associated protein landscapes on Trypanosoma brucei repetitive elements using synthetic TALE proteins
Defining the chromatin-associated protein landscapes on Trypanosoma brucei repetitive elements using synthetic TALE proteins
PRJNA1255617 | ENA
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