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TranscriptomicsAlu sequences in undifferentiated human embryonic stem cells display high levels of A-to-I RNA editing
Adenosine to Inosine (A-to-I) RNA editing is a site-specific modification of RNA transcripts, catalyzed by members of the ADAR (Adenosine Deaminase Acting on RNA) protein family. RNA editing occurs in human RNA in thousands of different sites. Some of the sites are located in protein-coding regions ...
ORGANISM(S): Homo sapiens 
2010-07-29 | E-GEOD-19719 | biostudies-arrayexpress
GenomicsGrowth signals employ CGGBP1 to suppress transcription of Alu-SINEs [ChIP-Seq]
Alu SINEs are the most numerous frequently occurring transcription units in our genomes and possess sequence competence for transcription by RNA Pol III. However, through poorly understood mechanisms, the Alu RNA levels are maintained at very low levels in normal somatic cells with obvious benefits ...
ORGANISM(S): Homo sapiens 
2015-04-29 | E-GEOD-53571 | biostudies-arrayexpress
TranscriptomicsDICER- andM-BM- AGO3-dependent generation of retinoic acid-induced DR2 Alu RNAs regulates human stem cell proliferation (RNA-seq)
Although liganded nuclear receptors have been established to regulate RNA polymerase II (Pol II)-dependent transcription units, their role in regulating Pol III-transcribed DNA repeats remains largely unknown. Here we report that ~2-3% of the ~100,000-200,000 total human DR2 Alu repeats located in p...
ORGANISM(S): Homo sapiens 
2012-12-29 | E-GEOD-42563 | biostudies-arrayexpress
ProteomicsTFIIIC dinamically binds Alu elements to control gene expression through chromatin looping
Folding of the mammalian genome is governed by architectural proteins, such asCTCF. TFIIIC, a RNA polymerase III transcription factor, has been identified as aninsulator but its role in genome topology is totally unknown. Here, we show that TFIIICestablishes long-range genomic interactions that affe...
ORGANISM(S): Homo sapiens (Human) 
2020-05-26 | PXD011250 | Pride
Human Breast cancer Alu Tfiiic 
GenomicsAnalysis of DNA methylation dynamics at Alu elements during human B cell activation
Paired-end sequencing of methylated DNA fragments in B cell subsets revealed widespread loss of methylation at Alu elements upon B cell activation. DNA methylation pattern was analyzed in purified naïve and germinal-center B cells derived from 1 patient
ORGANISM(S): Homo sapiens 
2013-03-01 | E-GEOD-42386 | biostudies-arrayexpress
TranscriptomicsPost-transcriptional regulation by Alu within mRNA
An extrachromosomal replication system was established to examine the perturbation of Alu-carrying genes in response to elevated Alu RNAs in the opposite direction. The null hypothesis is that the Alu-carrying RNA duplex cannot trigger subsequent post-transcriptional regulation, manifesting a random...
ORGANISM(S): Homo sapiens 
2013-05-13 | E-GEOD-39822 | biostudies-arrayexpress
GenomicsGenome-wide perturbations of Alu expression and Alu-associated post-transcriptional regulations find a uniqueness in oligodendroglioma
Genome-wide perturbations of Alu expression and Alu-associated post-transcriptional regulations find a uniqueness in oligodendroglioma
PRJNA695017 | ENA
TranscriptomicsThe contribution of Alu exons to the human proteome
Alu element is a major contributor to lineage-specific new exons in the primate and human genomes. Recent studies indicate that some Alu exons have high transcript inclusion levels or tissue-specific splicing profiles, and may play important regulatory roles in modulating mRNA degradation or transla...
ORGANISM(S): Homo sapiens 
2015-12-10 | E-GEOD-65999 | biostudies-arrayexpress
GenomicsComplementary Alu sequences mediate enhancer-promoter selectivity
Complementary Alu sequences mediate enhancer-promoter selectivity
PRJNA786348 | ENA
GenomicsAlu repeats blocking and CEBPA overexpression in BLaER1 cells, CEBPA ChIP-Seq
Weaker CEBPA binding in the human than in the mouse genome is a general trait of the human genome across multiple biological conditions. Alu repeats carry strong CEBPA binding motifs, which compete with regulatory regions for CEBPA binding. To directly test this hypothesis, we attempted to overcome ...
ORGANISM(S): Homo sapiens 
2023-05-01 | E-MTAB-12597 | biostudies-arrayexpress
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