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Related Concept Videos

Alternative RNA Splicing02:18

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 Splicing02:18

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...
RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
RNA Splicing01:32

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...
Ribosome Profiling02:24

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 helps...

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Related Experiment Video

Updated: Jun 2, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
08:35

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

Comprehensive assessment of alternative splicing analysis methods for single-cell RNA-seq.

Quanlong Jiang1, Guicai Li2, Lingyan Xing2

  • 1Medical Research Center, Nantong First People's Hospital, Southeast University, Nantong, Jiangsu, China.

Iscience
|June 1, 2026
PubMed
Summary
This summary is machine-generated.

scQuint robustly analyzes alternative splicing in single-cell RNA sequencing (scRNA-seq) data. This method aids in identifying cell-specific splicing programs for stem cell differentiation and immune cell studies.

Keywords:
Biological sciences

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Last Updated: Jun 2, 2026

Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Quantitative Analysis of Alternative Pre-mRNA Splicing in Mouse Brain Sections Using RNA In Situ Hybridization Assay
11:22

Quantitative Analysis of Alternative Pre-mRNA Splicing in Mouse Brain Sections Using RNA In Situ Hybridization Assay

Published on: August 26, 2018

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Alternative splicing significantly expands proteomic and transcriptomic diversity, crucial for cell identity and function.
  • Single-cell RNA sequencing (scRNA-seq) offers cellular resolution for transcriptome profiling, but method performance for splicing analysis is not well-established.

Purpose of the Study:

  • To systematically benchmark alternative splicing analysis methods using scRNA-seq data.
  • To evaluate method performance on key biological tasks like cell clustering and differential splicing detection.
  • To identify a robust method for uncovering cell type-specific splicing programs.

Main Methods:

  • Benchmarking of six representative alternative splicing analysis tools.
  • Utilized multiple full-length, short-read scRNA-seq datasets.
  • Focused on tasks including cell clustering and differential splicing detection.

Main Results:

  • scQuint demonstrated robust and consistent performance across various datasets and analytical tasks.
  • Application of scQuint identified biologically significant, cell type-specific splicing programs.
  • The study successfully applied scQuint to stem cell differentiation and tumor-associated immune cell datasets.

Conclusions:

  • scQuint is a recommended method for alternative splicing analysis in scRNA-seq data.
  • Single-cell splicing analysis provides valuable insights into regulatory mechanisms beyond gene expression.
  • The findings guide method selection for scRNA-seq splicing studies and highlight its utility in biological discovery.