from Genetic Engineering News When a baby is born, many of its tissues are still only partly formed. They need to be further developed before they are capable of performing adult functions. In general, neonatal-to-adult tissue remodeling is poorly understood, ...

D esigning an RNA-seq study depends critically on its specific goals, technology and underlying biology, which renders general guidelines inadequate.  A team led by researchers at IRB Barcelona have developed a Bayesian framework to customize experiments so that goals can ...

Alternative splicing plays an essential role in many cellular processes and bears major relevance in the understanding of multiple diseases, including cancer. High-throughput RNA sequencing allows genome-wide analyses of splicing across multiple conditions. However, the increasing number of available data ...

Understanding the occurrence and regulation of alternative splicing (AS) is a key task towards explaining the regulatory processes that help to shape the complex transcriptomes of higher eukaryotes. With the advent of high-throughput sequencing of RNA, the diversity of AS ...

Alternative splicing is crucial for proteome diversity and functional complexity in higher organisms. However, the alternative splicing landscape in fungi is still elusive. The transcriptome of the filamentous fungus Trichoderma longibrachiatum was deep sequenced using Illumina Solexa technology. A total ...

Alternative splicing (AS) is a eukaryotic principle to derive more than one RNA product from transcribed genes by removing distinct subsets of introns from a premature polymer. We know today that this process is highly regulated and makes up a ...

Alternative Splicing (AS) as a post-transcription regulation mechanism is an important application of RNA-seq studies in eukaryotes. A number of software and computational methods have been developed for detecting AS. Most of the methods, however, are designed and tested on ...

Ultra-deep RNA sequencing (RNA-Seq) has become a powerful approach for genome-wide analysis of pre-mRNA alternative splicing. Researchers from UCLA previously developed multivariate analysis of transcript splicing (MATS), a statistical method for detecting differential alternative splicing between two RNA-Seq samples. Here ...

High-throughput RNA sequencing allows genome-wide analyses of pre-mRNA splicing across multiple conditions. However, the increasing number of available datasets represents a major challenge in terms of time and storage required for analyses. Now, a team led by researchers at the ...

The nomination of candidate genes underlying complex traits is often focused on genetic variations that alter mRNA abundance or result in non-conservative changes in amino acids. Although inconspicuous in complex trait analysis, genetic variants that affect splicing or RNA editing ...