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TranscriptomicsMicroarray-based global mapping of integration sites of retrotransposon, intracisternal A-particle, in mouse genome
Mammalian genomes have evolutionary harbored numerous mobile elements, a part of which are still active and evoke genomic instability. Their movement and positional diversity occasionally result in phenotypic changes and variation by causing altered expression and disruption of neighboring genes in...
ORGANISM(S): Mus musculus 
2008-05-03 | E-GEOD-9572 | biostudies-arrayexpress
TranscriptomicsA retrotransposon-driven Dicer variant enhances endogenous RNAi in mouse oocytes
Mammals have one Dicer gene required for biogenesis of small RNAs in microRNA (miRNA) and RNA interference (RNAi) pathways. Yet, endogenous RNAi is highly active in oocytes but not in somatic cells. Here, we provide a mechanistical explanation for high RNAi activity in mouse oocytes. The main Dicer ...
ORGANISM(S): Mus musculus 
2013-11-07 | E-GEOD-41207 | biostudies-arrayexpress
GenomicsRetrotransposon derepression leads to activation of the unfolded protein response and apoptosis in pro B cells
The establishment of distinct transcription programs during development is controlled by transcription factor networks acting in specific chromatin environments. The H3K9me3-specific histone methyltransferase Setdb1 impacts on transcriptional regulation by repressing both developmental genes and ret...
ORGANISM(S): Mus musculus 
2016-07-20 | E-GEOD-77636 | biostudies-arrayexpress
TranscriptomicsMaternally deposited germline piRNAs silence the tirant retrotransposon in somatic cells
Transposable elements (TEs), whose propagation can result in severe damage to the host genome, are silenced in the animal gonad by Piwi-interacting RNAs (piRNAs). piRNAs produced in the ovaries are deposited in the embryonic germline and initiate TE repression in the germline progeny. Whether the ma...
ORGANISM(S): Drosophila simulans 
2013-04-09 | E-GEOD-40592 | biostudies-arrayexpress
TranscriptomicsRetrotransposon Ty1 integration targets specifically positioned asymmetric nucleosomal DNA segments in tRNA hotspots
Using a TIP-seq protocol (specifically isolating transposon insertion junctions) we determined that the Ty1 retrotransposon targets tRNA genes and, in particular, we determined that the transposon inserts into nucleosomal DNA in an asymmetric pattern. TIP-seq recovery of transposon insertion junctio...
ORGANISM(S): Saccharomyces cerevisiae 
2012-01-01 | E-GEOD-33986 | biostudies-arrayexpress
ProteomicsUBQLN2 restrains the domesticated retrotransposon PEG10 to maintain neuronal health in ALS
Amyotrophic Lateral Sclerosis (ALS) is a rare neurodegenerative disease characterized by motor neuron dysfunction and loss, leading to progressive paralysis and death. A portion of ALS cases is caused by mutation of the proteasome shuttle factor Ubiquilin 2 (UBQLN2), but the molecular pathway leadin...
ORGANISM(S): Homo sapiens (Human) 
2023-03-24 | PXD031964 | Pride
Q-exactive hf-x Tmt Als Human spinal cord 
TranscriptomicsThe TDRD9-MIWI2 complex is essential for piRNA-mediated retrotransposon silencing in the mouse male germline
We identify small RNA partners of Mili from 14 dpp testes of Tdrd9-/- and Tdrd9+/- mice. Two technical replicates of the same library are indicated as replicate 1 and 2. Examination of differences in Mili-associated RNAs in 14 dpp testes of Tdrd9-/- and Tdrd9+/- mice
ORGANISM(S): Mus musculus 
2010-01-06 | E-GEOD-18825 | biostudies-arrayexpress
TranscriptomicsArgonaute proteins affect siRNA levels and accumulation of a novel extrachromosomal DNA from the Dictyostelium retrotransposon DIRS-1
We report on the function of the D. dictyostelium argonaute proteins AgnA and AgnB in the silencing mechanism of the retrotransposon DIRS-1. By deep sequencing analysis we found that AgnA is involved in the accumulation of DIRS-1 siRNAs since in respective knockout strains siRNAs are strongly reduce...
ORGANISM(S): Dictyostelium discoideum 
2014-12-04 | E-GEOD-56111 | biostudies-arrayexpress
GenomicsHuman cytomegalovirus hijacks L1 retrotransposon to fuel its heterogeneity
Human cytomegalovirus hijacks L1 retrotransposon to fuel its heterogeneity
PRJNA897076 | ENA
GenomicsRetrotransposon-driven environmental regulation of FLC
Herbicide response through retrotransposon-mediated environmentally-sensitive epigenetic regulation of FLC in Arabidopsis
PRJEB65878 | ENA
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