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Article
Open AccessHnRNPK maintains single strand RNA through controlling double-strand RNA in mammalian cells
Although antisense transcription is a widespread event in the mammalian genome, double-stranded RNA (dsRNA) formation between sense and antisense transcripts is very rare and mechanisms that control dsRNA rema...
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Protocol
Labeling and Purification of Temporally Expressed RNAs During the S-Phase of the Cell Cycle in Living Cells
From high-throughput DNA and RNA sequencing technologies, it is evident that more than two-thirds of the mammalian genome is transcribed and nearly 98% of the transcriptional output in humans constitute noncod...
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Article
Open AccessTranscriptome-wide Profiling of Cerebral Cavernous Malformations Patients Reveal Important Long noncoding RNA molecular signatures
Cerebral cavernous malformations (CCMs) are low-flow vascular malformations in the brain associated with recurrent hemorrhage and seizures. The current treatment of CCMs relies solely on surgical intervention....
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Article
Open AccessAuthor Correction: MEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA–DNA triplex structures
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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Article
FOXK1 and FOXK2 regulate aerobic glycolysis
Adaptation to the environment and extraction of energy are essential for survival. Some species have found niches and specialized in using a particular source of energy, whereas others—including humans and sev...
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Article
Open AccessPAN-cancer analysis of S-phase enriched lncRNAs identifies oncogenic drivers and biomarkers
Despite improvement in our understanding of long noncoding RNAs (lncRNAs) role in cancer, efforts to find clinically relevant cancer-associated lncRNAs are still lacking. Here, using nascent RNA capture sequen...
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Protocol
Chromatin RNA Immunoprecipitation (ChRIP)
Researchers have recently had a growing interest in understanding the functional role of long noncoding RNAs (lncRNAs) in chromatin organization. Accumulated evidence suggests lncRNAs could act as interphase m...
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Article
Open AccessGlobal DNA methylation profiling reveals new insights into epigenetically deregulated protein coding and long noncoding RNAs in CLL
Methyl-CpG-binding domain protein enriched genome-wide sequencing (MBD-Seq) is a robust and powerful method for analyzing methylated CpG-rich regions with complete genome-wide coverage. In chronic lymphocytic ...
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Article
Open AccessGeneSCF: a real-time based functional enrichment tool with support for multiple organisms
High-throughput technologies such as ChIP-sequencing, RNA-sequencing, DNA sequencing and quantitative metabolomics generate a huge volume of data. Researchers often rely on functional enrichment tools to inter...
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Article
Open AccessMEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA–DNA triplex structures
Long noncoding RNAs (lncRNAs) regulate gene expression by association with chromatin, but how they target chromatin remains poorly understood. We have used chromatin RNA immunoprecipitation-coupled high-throug...
