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RNA-seq

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...

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Related Experiment Video

Updated: May 10, 2025

CRISPR Gene Editing Tool for MicroRNA Cluster Network Analysis

CRISPR Gene Editing Tool for MicroRNA Cluster Network Analysis

Published on: April 25, 2022

Techniques for Validating CRISPR Changes Using RNA-Sequencing Data.

Susan K Rathe¹, Tracy A Marko¹, Elizabeth N Edwards¹

¹Masonic Cancer Center, University of Minnesota, Minneapolis, MN 55455, USA.

|April 26, 2025

Summary

This summary is machine-generated.

CRISPR gene editing can cause unintended transcriptome changes missed by DNA sequencing. RNA sequencing (RNA-seq) is crucial for detecting these alterations and ensuring accurate CRISPR experiment results.

Keywords:

CRISPR RNA sequencing knockout experiments

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Last Updated: May 10, 2025

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Generation of Genomic Deletions in Mammalian Cell Lines via CRISPR/Cas9

Generation of Genomic Deletions in Mammalian Cell Lines via CRISPR/Cas9

Published on: January 3, 2015

Area of Science:

Molecular Biology
Genomics
Gene Editing Technologies

Background:

CRISPR gene editing is a powerful tool for gene function studies.
Standard DNA analysis methods may not detect all CRISPR-induced genetic alterations.

Purpose of the Study:

To analyze RNA-sequencing data from CRISPR knockout experiments.
To develop methods for confirming CRISPR modifications and identifying unintended consequences.

Main Methods:

Broad-based analysis of RNA-sequencing data.
Comparison of RNA-seq findings with DNA analysis (PCR amplification).

Main Results:

RNA-seq identified CRISPR-induced changes missed by DNA analysis.
Detected events include inter-chromosomal fusions, exon skipping, and gene amplification.

Conclusions:

RNA-sequencing is essential for comprehensive assessment of CRISPR editing outcomes.
Guidelines are provided for designing and analyzing CRISPR experiments using RNA-seq data.