Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

You might also read

Related Articles

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

Sort by

Same author

RAS pathway activation and microenvironmental adaptation as hallmarks of myeloid sarcoma.

Blood cancer discovery·2026

Same author

Adjuvant personalized multivalent neoantigen DNA vaccination for MGMT unmethylated glioblastoma: a phase 1 trial.

Nature cancer·2026

Same author

Optical genome mapping identifies clinically relevant somatic structural variation in epilepsy-affected brain tissue.

medRxiv : the preprint server for health sciences·2026

Same author

Improving Knowledge and Care of Patients with AML: The Need to Get Out of Our Comfort Zone.

Blood cancer discovery·2026

Same author

Somatic variants activating the RAS-MAPK pathway confer susceptibility to hippocampal sclerosis in drug-resistant epilepsy.

bioRxiv : the preprint server for biology·2026

Same author

Trabectedin decreases myeloid resistance to improve the efficacy of anti-PD1 immunotherapy and delay glioma malignant progression.

Molecular therapy. Oncology·2026

Same journal

ClairS: a deep-learning method for long-read tumor-normal pair somatic small variant calling.

Nature methods·2026

Same journal

RNAbpFlow: base pair-augmented SE(3) flow matching for conditional RNA 3D structure generation.

Nature methods·2026

Same journal

Spatio-DARLIN enables robust and efficient in situ lineage tracing in mice at single-cell resolution.

Nature methods·2026

Same journal

EasyGrid: a versatile platform for automated cryo-EM sample preparation and quality control.

Nature methods·2026

Same journal

Cloud-based microscope enables live neuroimaging for 24 h and beyond with worldwide access.

Nature methods·2026

Same journal

Deep molecular profiling in three dimensions.

Nature methods·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Jun 21, 2026

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

BreakDancer: an algorithm for high-resolution mapping of genomic structural variation.

Ken Chen¹, John W Wallis, Michael D McLellan

¹The Genome Center, Washington University School of Medicine, St. Louis, Missouri, USA. kchen22@wustl.edu

|August 12, 2009

Summary

This summary is machine-generated.

This study validates BreakDancer, an algorithm for detecting genomic structural variations. It accurately identifies insertion-deletions (indels) and other variations using next-generation sequencing data.

More Related Videos

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

Related Experiment Videos

Last Updated: Jun 21, 2026

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing

Published on: August 24, 2017

Area of Science:

Genomics
Bioinformatics
Human Genetics

Background:

Genomic structural variations are crucial for understanding human populations and diseases like cancer.
Next-generation sequencing (NGS) shows promise for detecting these variations, but methods require clarification.
Accurate detection of structural variants is essential for genetic research.

Purpose of the Study:

To evaluate the BreakDancer algorithm for detecting genomic structural variation.
To assess BreakDancer's performance across various variant types and sizes.
To compare BreakDancer with existing methods for structural variant detection.

Main Methods:

Utilized simulation studies to assess BreakDancer's accuracy.
Compared BreakDancer's performance against other detection methods.
Applied BreakDancer to analyze samples from acute myeloid leukemia patients and 1,000 Genomes trio individuals.

Main Results:

BreakDancer effectively predicted diverse structural variants, including insertion-deletions (indels), inversions, and translocations.
The algorithm demonstrated high sensitivity and accuracy in detecting indels from 10 base pairs to 1 megabase pair.
BreakDancer successfully identified variations that are challenging for conventional sequencing approaches.

Conclusions:

BreakDancer is a sensitive and accurate tool for detecting a wide spectrum of genomic structural variations.
The algorithm enhances the utility of next-generation sequencing data for structural variant analysis.
BreakDancer provides a valuable method for studying genetic variation in human populations and diseases.