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Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
DNA Microarrays02:34

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...
Karyotyping01:17

Karyotyping

Describing the number and physical features of chromosomes can reveal abnormalities that underlie genetic diseases. This description is facilitated by special staining techniques that produce a particular banding pattern on each chromosome. State-of-the-art techniques make this approach even more powerful, enabling the detection of individual genes that cause disease.A Simple Chromosome Staining Technique Provides Valuable Scientific InsightSome genetic diseases can be detected by looking at...
Genome Copying Errors02:46

Genome Copying Errors

DNA replication is a well-evolved process that copies millions of base pairs with high fidelity during each cell division. Occasionally a wrong base or a long stretch of wrong bases may get added to the daughter strands. If the errors are left unchecked, cells might accumulate several mutations that might endanger their  survival. Therefore, the copying errors are checked and repaired at three levels.

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Related Experiment Video

Updated: Jun 8, 2026

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants
09:16

Array Comparative Genomic Hybridization (Array CGH) for Detection of Genomic Copy Number Variants

Published on: February 21, 2015

Detection of clinically relevant exonic copy-number changes by array CGH.

Philip M Boone1, Carlos A Bacino, Chad A Shaw

  • 1Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.

Human Mutation
|September 18, 2010
PubMed
Summary

This study introduces a custom oligonucleotide array for detecting small, intragenic copy-number variations (CNVs) in patients. This advanced array improves the molecular diagnosis of genetic disorders by identifying deletions or duplications within genes.

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Area of Science:

  • Genetics
  • Molecular Biology
  • Genomic Medicine

Background:

  • Array comparative genomic hybridization (aCGH) is crucial for diagnosing genomic copy-number variation (CNV) disorders.
  • Intragenic deletions/duplications smaller than a gene are typically below the detection limit of standard clinical aCGH.
  • Increasing probe density improves resolution but raises costs and can increase detection of benign CNVs.

Purpose of the Study:

  • To develop and clinically validate a custom-designed oligonucleotide array for high-resolution detection of intragenic CNVs.
  • To identify genomic losses or gains at the sub-gene level, specifically within exons.
  • To assess the utility of exon-targeted arrays for diagnosing genetic disorders with subkilobase resolution.

Main Methods:

  • Designed a custom oligonucleotide array with specific exonic coverage of disease and candidate genes.
  • Applied the array in clinical settings to analyze patient genomes for copy-number changes.
  • Focused on detecting CNVs involving at least one exon, with sizes down to several hundred base pairs.

Main Results:

  • Successfully identified clinically relevant intragenic copy-number changes in patients with diverse phenotypes.
  • Demonstrated detection of CNVs within genes known to cause specific clinical conditions.
  • Achieved subkilobase resolution for detecting intragenic copy-number variations.

Conclusions:

  • A custom-designed, exon-targeted oligonucleotide array is effective for detecting intragenic CNVs.
  • This approach enhances the molecular diagnosis of genetic disorders by identifying sub-gene level variations.
  • The array provides clinically relevant, high-resolution detection of copy-number changes within genes.