Tag Archives: alternative splicing

Kleat – cleavage site analysis of transcriptomes

rna-seq

In eukaryotic cells, alternative cleavage of 3′ untranslated regions (UTRs) can affect transcript stability, transport and translation. For polyadenylated (poly(A)) transcripts, cleavage sites can be characterized with short-read sequencing using specialized library construction methods. However, for large-scale cohort studies as ...

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IUTA – a tool for effectively detecting differential isoform usage from RNA-Seq data

rna-seq

Most genes in mammals generate several transcript isoforms that differ in stability and translational efficiency through alternative splicing. Such alternative splicing can be tissue- and developmental stage-specific, and such specificity is sometimes associated with disease. Thus, detecting differential isoform usage ...

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High-Resolution Transcriptome Analysis with Long-Read RNA Sequencing

rna-seq

RNA sequencing (RNA-seq) enables characterization and quantification of individual transcriptomes as well as detection of patterns of allelic expression and alternative splicing. Current RNA-seq protocols depend on high-throughput short-read sequencing of cDNA. However, as ongoing advances are rapidly yielding increasing ...

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SUPPA – a super-fast pipeline for alternative splicing analysis from RNA-Seq

rna-seq

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 ...

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Brain RNA-Seq – An RNA-Sequencing Transcriptome and Splicing Database

rna-seq

The major cell classes of the brain differ in their developmental processes, metabolism, signaling, and function. To better understand the functions and interactions of the cell types that comprise these classes, a team led by researchers at the Stanford University ...

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