Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

RNA-seq03:21

RNA-seq

9.8K
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...
9.8K
Ribosome Profiling02:24

Ribosome Profiling

3.5K
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...
3.5K
RACE - Rapid Amplification of cDNA Ends02:35

RACE - Rapid Amplification of cDNA Ends

6.3K
Rapid Amplification of cDNA Ends, or RACE, is one of the most effective methods to obtain a full-length cDNA from an mRNA sequence between a known internal region to the unknown sequence at the 5’ or 3’ end. The unknown region is cloned in the cDNA by a gene-specific primer that binds the known end, and a hybrid primer that attaches a predefined anchor sequence to the unknown end of the cDNA. The sequence in between is amplified by PCR with an anchor primer and a gene-specific...
6.3K
Next-generation Sequencing03:00

Next-generation Sequencing

87.3K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
87.3K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Magrolimab Plus Azacitidine Versus Placebo Plus Azacitidine in Patients With Untreated Higher-Risk Myelodysplastic Syndromes: The Phase III ENHANCE Study.

Journal of clinical oncology : official journal of the American Society of Clinical Oncology·2026
Same author

Squeezing-Enhanced Sensing at an Exceptional Point.

Physical review letters·2026
Same author

Nasal Leech in a Child.

Ear, nose, & throat journal·2026
Same author

Durable response to salvage gilteritinib, allogeneic stem cell rescue and maintenance therapy in relapsed AML with a <i>FLT3</i> N676K variant.

Leukemia & lymphoma·2026
Same author

Single-cell tracking of the fittest in AML.

Blood·2026
Same author

Real-world, multi-omics validation of the clinical relevance of molecular taxonomy for myelodysplastic syndromes (MDS).

HemaSphere·2026

Related Experiment Video

Updated: Jun 3, 2025

Visualizing Genetic Variants, Short Targets, and Point Mutations in the Morphological Tissue Context with an RNA In Situ Hybridization Assay
10:57

Visualizing Genetic Variants, Short Targets, and Point Mutations in the Morphological Tissue Context with an RNA In Situ Hybridization Assay

Published on: August 14, 2018

10.6K

Single-cell Rapid Capture Hybridization sequencing reliably detects isoform usage and coding mutations in targeted

Hongke Peng1,2, Jafar S Jabbari1,2, Luyi Tian1,2

  • 1The Walter and Eliza Hall Institute of Medical Research, Melbourne 3052, Australia.

Genome Research
|January 10, 2025
PubMed
Summary

We developed scRaCH-seq, a novel method for targeted long-read sequencing in single cells. This technique enhances mutation detection and isoform analysis for specific genes, improving single-cell genomics insights.

More Related Videos

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
11:52

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

10.3K
Detecting Somatic Genetic Alterations in Tumor Specimens by Exon Capture and Massively Parallel Sequencing
11:02

Detecting Somatic Genetic Alterations in Tumor Specimens by Exon Capture and Massively Parallel Sequencing

Published on: October 18, 2013

19.4K

Related Experiment Videos

Last Updated: Jun 3, 2025

Visualizing Genetic Variants, Short Targets, and Point Mutations in the Morphological Tissue Context with an RNA In Situ Hybridization Assay
10:57

Visualizing Genetic Variants, Short Targets, and Point Mutations in the Morphological Tissue Context with an RNA In Situ Hybridization Assay

Published on: August 14, 2018

10.6K
Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations
11:52

Targeted RNA Sequencing Assay to Characterize Gene Expression and Genomic Alterations

Published on: August 4, 2016

10.3K
Detecting Somatic Genetic Alterations in Tumor Specimens by Exon Capture and Massively Parallel Sequencing
11:02

Detecting Somatic Genetic Alterations in Tumor Specimens by Exon Capture and Massively Parallel Sequencing

Published on: October 18, 2013

19.4K

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Single-cell long-read sequencing offers insights into isoform usage and cellular mutation heterogeneity.
  • Low sequencing throughput in current methods limits mutation calling for specific genes.

Purpose of the Study:

  • To develop a highly specific and efficient method for targeted transcript capture in single-cell long-read sequencing.
  • To enable in-depth analysis of mutation status and transcript usage for genes of interest.

Main Methods:

  • Developed single-cell Rapid Capture Hybridization sequencing (scRaCH-seq) using a probe panel for transcript capture.
  • Utilized barcoded primers for pooling and Oxford Nanopore Technologies sequencing.
  • Applied scRaCH-seq to stored single-cell cDNA, enabling integration with existing short-read RNA-seq data.

Main Results:

  • scRaCH-seq demonstrated high specificity and efficiency in capturing targeted transcripts.
  • Successfully detected SF3B1 isoforms and mutations with high sensitivity in chronic lymphocytic leukemia (CLL) samples.
  • Integrated scRaCH-seq with scRNA-seq data revealed gene expression differences in SF3B1-mutated CLL cells.

Conclusions:

  • scRaCH-seq is a powerful tool for analyzing long-read transcripts of multiple genes in single-cell genomics.
  • The method facilitates sensitive mutation detection and isoform analysis, overcoming limitations of low read coverage.
  • scRaCH-seq enables combined analysis with existing scRNA-seq data for comprehensive genomic insights.