Monthly Archives: January 2015

Genome-wide analysis of the human p53 transcriptional network unveils a lncRNA tumour suppressor signature

lncRNA

Despite the inarguable relevance of p53 in cancer, genome-wide studies relating endogenous p53 activity to the expression of lncRNAs in human cells are still missing. Here, by integrating RNA-seq with p53 ChIP-seq analyses of a human cancer cell line under DNA damage, researchers from the Universidad de Navarra, Spain define a high-confidence set of 18 lncRNAs that are p53 transcriptional ...

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The landscape of long noncoding RNAs in the human transcriptome

Long noncoding RNAs (lncRNAs) are emerging as important regulators of tissue physiology and disease processes including cancer. To delineate genome-wide lncRNA expression, researchers at the University of Michigan curated 7,256 RNA sequencing (RNA-seq) libraries from tumors, normal tissues and cell lines comprising over 43 Tb of sequence from 25 independent studies. They applied ab initio assembly methodology to this data ...

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Long noncoding RNAs – A Novel Prognostic Marker In AML

lncRNA

From Drug Discovery News A new study led by researchers at The Ohio State University Comprehensive Cancer Center – Arthur G. James Cancer Hospital and Richard J. Solove Research Institute (OSUCCC – James) describes a novel marker that might help doctors choose the least toxic, most effective treatment for many older patients with acute myeloid leukemia (AML). AML occurs mainly ...

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Community Curated Database For LncRNA

lncRNA

A wiki-style database hopes to serve as an online encyclopedia of lncRNA by and for the scientific community. Scientists have set up a long non-coding RNA (lncRNA) database aimed at harnessing the collective knowledge of the scientific community. This study has been published in Nucleic Acids Research. LncRNAs are RNAs that do not code for proteins but are nonetheless actively ...

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Discovery and annotation of long noncoding RNAs

lncRNA

Recent advances in RNA-sequencing technologies have led to the discovery of thousands of previously unannotated noncoding transcripts, including many long noncoding RNAs (lncRNAs) whose functions remain largely unknown. Discussed here are considerations and best practices in lncRNA identification and annotation, which we hope will foster functional and mechanistic exploration. Perhaps the biggest surprise of the postgenomic era has been the ...

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Finding the function of long noncoding RNA

lncRNA

Mouse experiments suggest that a noncoding RNA can be vital for successful pregnancy The proteins that underlie nearly all biological mechanisms are produced from RNA molecules transcribed from genetic sequences in DNA. However, a large proportion of transcribed RNA is not transcoded into proteins and appears to have no significant function. Shinichi Nakagawa from the RIKEN RNA Biology Laboratory and ...

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REDItools – Uncovering RNA Editing Sites in Long Non-Coding RNAs

lncRNA

RNA editing is an important co/post-transcriptional molecular process able to modify RNAs by nucleotide insertions/deletions or substitutions. In human, the most common RNA editing event involves the deamination of adenosine (A) into inosine (I) through the adenosine deaminase acting on RNA proteins. Although A-to-I editing can occur in both coding and non-coding RNAs, recent findings, based on RNA-seq experiments, have ...

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Human long noncoding RNAs are substantially less folded than messenger RNAs

lncRNA

Long noncoding RNAs (lncRNAs) do not code for proteins but function as RNAs. Because the functions of an RNA rely on either its sequence or secondary structure, lncRNAs should be folded at least as strongly as messenger RNAs (mRNAs), which serve as messengers for translation and are generally thought to lack secondary structure-dependent RNA-level functions. Contrary to this prediction, analysis ...

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