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Related Concept Videos

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...
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...
Pre-mRNA Processing: RNA Splicing01:32

Pre-mRNA Processing: 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...
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...
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...

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Related Experiment Video

Updated: May 16, 2026

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
09:58

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

DiffSplice: the genome-wide detection of differential splicing events with RNA-seq.

Yin Hu1, Yan Huang, Ying Du

  • 1Department of Computer Science, University of Kentucky, Lexington, KY 40506, USA.

Nucleic Acids Research
|November 17, 2012
PubMed
Summary

This study introduces DiffSplice, a novel method for detecting differential transcription by analyzing alternative splicing modules without gene annotations. It accurately identifies transcriptomic differences, aiding in understanding cell differentiation and disease biomarkers.

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

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Last Updated: May 16, 2026

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
09:58

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

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

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Transcriptome variation is crucial for cellular differentiation and environmental responses.
  • Differential transcription analysis enhances understanding of cell development and disease biomarker discovery.
  • High-throughput RNA sequencing offers deep transcriptome sampling for accurate difference detection.

Purpose of the Study:

  • To present a new method for detecting and visualizing differential transcription.
  • To overcome limitations of existing methods, such as reliance on gene annotations and challenges in transcript inference.

Main Methods:

  • A divide-and-conquer approach to identify alternative splicing modules (ASMs) from splice graphs derived from RNA-seq data.
  • Estimation of alternative splicing isoform abundance within ASMs and comparison across sample groups.
  • Application of a non-parametric statistical test with false discovery rate control to detect differential transcription.

Main Results:

  • The method's sensitivity and specificity were validated using simulated datasets and compared favorably against state-of-the-art approaches.
  • Experimental validation using qRT-PCR confirmed differentially expressed genes in lung differentiation and breast cancer datasets.
  • Demonstrated utility of the DiffSplice approach on experimental biological data.

Conclusions:

  • DiffSplice provides an effective, annotation-independent method for differential transcription analysis.
  • The approach accurately identifies transcriptomic differences at the level of alternative splicing modules.
  • Validated utility in biological studies, offering a valuable tool for transcriptomic research.