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RNA Splicing

RNA Splicing

Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...

Pre-mRNA Processing: RNA Splicing

Pre-mRNA Processing: RNA Splicing

Alternative RNA Splicing

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...

Alternative RNA Splicing

Alternative RNA Splicing

Chromatin Structure and RNA Splicing

Chromatin Structure and RNA Splicing

Ribosome Profiling

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...

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Related Experiment Video

Updated: Feb 27, 2026

Merging Absolute and Relative Quantitative PCR Data to Quantify STAT3 Splice Variant Transcripts

Merging Absolute and Relative Quantitative PCR Data to Quantify STAT3 Splice Variant Transcripts

Published on: October 9, 2016

BRIE: transcriptome-wide splicing quantification in single cells.

Yuanhua Huang¹, Guido Sanguinetti^2,3

¹School of Informatics, University of Edinburgh, Edinburgh, EH8 9AB, UK.

|June 29, 2017

Summary

This summary is machine-generated.

Single-cell RNA sequencing (scRNA-seq) can now analyze RNA processing variability. A new Bayesian model, BRIE, enables reproducible isoform quantification from scRNA-seq data, expanding research into RNA processing stochasticity.

Keywords:

Differential splicing Isoform estimate Single-cell RNA-seq

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Area of Science:

Molecular Biology
Computational Biology
Genomics

Background:

Single-cell RNA sequencing (scRNA-seq) measures transcriptional stochasticity but is limited in analyzing RNA processing events like splicing.
Existing methods struggle to accurately quantify isoform variability at the single-cell level due to technological constraints.

Purpose of the Study:

To develop a computational method for dissecting RNA processing variability using scRNA-seq data.
To introduce BRIE (Bayesian regression for isoform estimation), a novel Bayesian hierarchical model for isoform quantification.

Main Methods:

Developed BRIE, a Bayesian hierarchical model that learns informative priors from sequence features.
Applied BRIE to scRNA-seq datasets to estimate exon inclusion ratios and quantify isoform differences.
Validated the reproducibility and effectiveness of BRIE for differential isoform analysis.

Main Results:

BRIE provides reproducible estimates of exon inclusion ratios in single cells.
The model effectively quantifies differential isoform expression between scRNA-seq datasets.
BRIE successfully overcomes limitations of scRNA-seq for analyzing RNA processing stochasticity.

Conclusions:

BRIE expands the application of scRNA-seq to investigate the stochasticity of RNA processing.
This method enables a deeper understanding of gene expression regulation at the isoform level in single cells.
BRIE is a valuable tool for researchers studying RNA processing dynamics in complex biological systems.