Technology

Genetic variation in long noncoding RNAs and the risk of nonalcoholic fatty liver disease

lncRNA

The human transcriptome comprises a myriad of non protein-coding RNA species, including long noncoding RNAs (lncRNAs), which have a remarkable role in transcriptional and epigenetic regulation. Researchers at the University of Buenos Aires hypothesized that variants in lncRNAs influence the susceptibility to nonalcoholic fatty liver disease (NAFLD). Using next generation sequencing, they performed a survey of genetic variation associated with randomly ...

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The short ASCC3 RNA isoform functions as a long non-coding RNA

Researchers from the Francis Crick Institute analyzed the transcription-related DNA damage response on a genome-wide scale with great spatial and temporal resolution. Upon UV irradiation, a slowdown of transcript elongation and restriction of gene activity to the promoter-proximal ∼25 kb is observed. This is associated with a shift from expression of long mRNAs to shorter isoforms, incorporating alternative last exons ...

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lncRNA co-expression network model for the prognostic analysis of acute myeloid leukemia

lncrna

Acute myeloid leukemia (AML) is a highly heterogeneous hematologic malignancy with great variability of prognostic behaviors. Previous studies have reported that long non-coding RNAs (lncRNAs) play an important role in AML and may thus be used as potential prognostic biomarkers. However, thus use of lncRNAs as prognostic biomarkers in AML and their detailed mechanisms of action in this disease have ...

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A panel of four-long noncoding RNA signatures predicts prostate cancer survival

lncRNA

Growing evidences showed that lncRNAs abnormally expressed in cancer tissues and played irreplaceable roles in tumorigenesis, progression and metastasis. In present study, researchers from Yangzhou University aimed to identify lncRNA expression signature that can predict biochemical recurrence-free (BCR-free) survival of prostate cancer (PCa) patients. A total of 291 patients with pathologic confirmed PCa in The Cancer Genome Atlas dataset were ...

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In Silico identification and annotation of non-coding RNAs by RNA-seq and De Novo assembly of the transcriptome

The complexity of the tomato (Solanum lycopersicum) transcriptome has not yet been fully elucidated. To gain insights into the diversity and features of coding and non-coding RNA molecules of tomato fruits, researchers from the University of Naples Federico II generated strand-specific libraries from berries of two tomato cultivars grown in two open-field conditions with different soil type. Following high-throughput Illumina RNA-sequencing ...

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Challenges of CRISPR/Cas9 applications for long non-coding RNA genes

lncRNA

Long non-coding RNAs (lncRNAs) represent a large subgroup of RNAs that are over 200 nucleotides long and have a limited protein-coding potential. They play an important role in diverse cellular processes by regulating the gene expression at transcriptional or post-transcriptional levels. This ability of lncRNAs to modulate gene expression renders them indispensable for normal development CRISPRs (Clustered Regularly Interspaced Palindromic ...

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Clusterization in head and neck squamous carcinomas based on lncRNA expression

lncRNA

Long non-coding RNAs (lncRNAs) have emerged as key players in a remarkably variety of biological processes and pathologic conditions, including cancer. Next-generation sequencing technologies and bioinformatics procedures predict the existence of tens of thousands of lncRNAs, from which we know the functions of only a handful of them, and very little is known in cancer types such as head and ...

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LncRNAs – macromolecules with big roles in neurobiology and neurological diseases

Long noncoding RNAs (lncRNAs) are recently defined as thousands of RNA molecules longer than 200 nucleotides and lacking an appreciable open reading frame in mammals. Although lncRNAs lack protein-coding function, they play critical roles in the regulation of almost all the protein-coding genes in a cell at various stages including chromatin modification, transcription and post-transcriptional processing. It is thus not ...

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High-throughput annotation of full-length long noncoding RNAs with Capture Long-Read Sequencing (CLS)

lncrna

Accurate annotations of genes and their transcripts is a foundation of genomics, but no annotation technique presently combines throughput and accuracy. As a result, current reference gene collections remain far from complete: many genes models are fragmentary, while thousands more remain uncatalogued, particularly for long non coding RNAs (lncRNAs). To accelerate lncRNA annotation, the GENCODE consortium has developed RNA Capture ...

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