Tag Archives: University of Copenhagen

Unsupervised machine learning methods (deep learning) have shown their usefulness with noisy single cell mRNA-sequencing data (scRNA-seq), where the models generalize well, despite the zero-inflation of the data. A class of neural networks...

miRNAs are small non-coding RNAs (ncRNAs) (21–23 nt long) that regulate gene expression at the post-transcriptional level by binding to messenger RNAs (mRNAs) and inhibiting their translation into proteins or by binding to other ncRNAs. First discovered in 1993 in Caenorhabditis ...

A key aspect of RNA secondary structure prediction is the identification of novel functional elements. This is a challenging task because these elements typically are embedded in longer transcripts where the borders between the element and flanking regions have to ...

Recently circular RNA (circularRNA) has been discovered as an increasingly important type of long non-coding RNA (lncRNA), playing an important role in gene regulation, such as functioning as miRNA sponges. So it is very promising to identify circularRNA transcripts from ...

RNA-seq allows for simultaneous transcript discovery and quantification, but reconstructing complete transcripts from such data remains difficult. Here, researchers from the University of Copenhagen introduce the Bayesembler, a novel probabilistic method for transcriptome assembly built on a Bayesian model of ...

Reliability and reproducibility are key metrics for gene expression assays. This report assesses the utility of the correlation coefficient in the analysis of reproducibility and reliability of gene expression data. The correlation coefficient alone is not sufficient to assess equality ...

RNA-seq data is currently underutilized, in part because it is difficult to predict the functional impact of alternate transcription events. Recent software improvements in full-length transcript deconvolution prompted researchers from the University of Copenhagen to develop spliceR, an R package ...

Quantitative real-time PCR (qPCR) has become the “gold standard”for measuring expression levels of individual miRNAs. However, little is known about the validity of reference miRNAs, the improper use of which can result in misleading interpretation of data. Here researchers from ...