Monthly Archives: September 2016

Long noncoding RNA (lincRNA), a new paradigm in gene expression control

lncRNA

Long intergenic non-coding RNAs (lincRNAs) are defined as RNA transcripts that are longer than 200 nucleotides. By definition, these RNAs must not have open reading frames that encode proteins. Many of these transcripts are encoded by RNA polymerase II, are spliced, and are poly-adenylated. This final fact indicates that there is a trove of information about lincRNAs in databases such ...

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HIPSTR and thousands of lncRNAs are heterogeneously expressed in human embryos, primordial germ cells and stable cell lines

rna-seq

by Dinar Yunusov In the article called “HIPSTR and thousands of lncRNAs are heterogeneously expressed in human embryos, primordial germ cells and stable cell lines”, we report a story of how a functional study of a single gene can provide an important insight into a general biological phenomenon, such as overall low expression levels of long non-coding RNAs (lncRNAs). Our ...

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CHART – Mapping Long Noncoding RNA Chromatin Occupancy Using Capture Hybridization Analysis of RNA Targets

lncRNA

Capture Hybridization Analysis of RNA Targets (CHART) has recently been developed to map the genome-wide binding profile of chromatin-associated RNAs. This protocol uses a small number of 22-28 nucleotide biotinylated antisense oligonucleotides, complementary to regions of the target RNA that are accessible for hybridization, to purify RNAs from a cross-linked chromatin extract. RNA-chromatin complexes are next immobilized on beads, washed, ...

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Human natural antisense lncRNAs can up-regulate protein translation

lncRNA

One of the biggest surprises of the past decade of genomic studies was the discovery that, contrary to previous belief, the majority of the genome is not used to produce proteins. Initially, many scientists thought that these long non-coding RNAs were non-functional “noise,” but in recent studies, a growing fraction of these lncRNAs have been found to have regulatory functions. ...

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Transcriptome analyses identifies long noncoding RNAs regulating energy metabolism

lncRNA

  Genome-wide screens define 359 metabolically sensitive lncRNAs in key metabolic organs LncRNA functions were predicted by mRNA-lncRNA correlation analyses In vitro assays connect lncRNAs to specific metabolic and signaling pathways SREBP1c induces Gm16551 to activate an lncRNA-mediated negative feedback loop       To systemically identify long noncoding RNAs (lncRNAs) regulating energy metabolism, researchers from the National Heart, Lung and ...

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CSHL scientists test an antisense method of targeting long noncoding RNAs overexpressed in breast cancers

lncRNAs

The human body produces 100,000 or more different proteins. Yet, amazingly, only two percent of the human genome actually encodes proteins. Nearly 80 percent of the rest of the genome is transcribed into RNA that does not code for proteins. Two big questions facing scientists are: How much of this “non-coding” RNA is actually functional? And does it play a ...

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Knockdown of Nuclear-Located Enhancer RNAs and Long ncRNAs Using Locked Nucleic Acid GapmeRs

lncRNA

The human genome is widely transcribed outside of protein-coding genes, producing thousands of noncoding RNAs from different subfamilies including enhancer RNAs. Functional studies to determine the role of individual genes are challenging with noncoding RNAs appearing to be more difficult to knockdown than mRNAs. One factor that may have hindered progress is that the majority of noncoding RNAs are thought ...

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lncRNA DINO essential to DNA damage response

lncRNA

Stanford researchers have found that a tumor suppressor known as p53 is stabilized by a regulatory lncRNA molecule called DINO. The interaction helps a cell respond to DNA damage and may play a role in cancer development and premature aging. p53-mediated induction of DINO in turn stabilizes p53 through RNA–protein interaction, amplifying DNA damage response. Knowing when to hold them, ...

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RNA-Seq analysis of lncRNAs

RNA-Seq is an approach to transcriptome profiling that uses deep-sequencing technologies to detect and accurately quantify RNA molecules originating from a genome at a given moment in time. In recent years, the advent of RNA-Seq has facilitated genome-wide expression profiling, including the identification of novel and rare transcripts like noncoding RNAs and novel alternative splicing isoforms. Advances in transcriptome reconstruction ...

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lncRNA Researcher One of Ten from Harvard named HHMI Faculty Scholars

lncRNA

Grants back early career scientists in ambitious research from the Harvard Gazette By Peter Reuell Ten Harvard scientists are among the 84 researchers nationwide named HHMI Faculty Scholars as part of a new initiative by the Howard Hughes Medical Institute, the Simons Foundation, and the Bill & Melinda Gates Foundation to recognize and support early career scientists who show exceptional ...

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