Related Experiment Video
Updated: Jul 18, 2026
16:37
Technical Demonstration of Whole Genome Array Comparative Genomic Hybridization
Published on: August 5, 2008
Genome scanning with array CGH delineates regional alterations in mouse islet carcinomas
G Hodgson1, J H Hager, S Volik
1Cancer Genetics and Breast Oncology Programs, UCSF Cancer Center, University of California at San Francisco, Box 0808, San Francisco, California 94143-0808, USA.
Nature Genetics
|November 6, 2001
Summary
This study uses array comparative genomic hybridization (array CGH) to identify genomic copy number changes in mouse pancreatic tumors. Researchers pinpointed new regions of genomic instability, aiding the search for cancer-related genes.
Area of Science:
- Oncology
- Genomics
- Comparative Genomics
Background:
- Pancreatic islet tumors in transgenic mice mimic human tumor progression.
- Loss of heterozygosity (LOH) on chromosomes 9 and 16 is linked to tumor phenotypes.
- Previous LOH mapping was limited by low throughput and marker availability.
Purpose of the Study:
- To overcome limitations in LOH mapping using array CGH.
- To perform genome-wide analysis of relative genome copy number in mouse pancreatic tumors.
- To identify novel regions of genomic copy number alterations and candidate genes.
Main Methods:
- Utilized comparative genomic hybridization to DNA microarrays (array CGH).
- Employed BACs at 2-20 MB intervals across the mouse genome, with higher density in regions of interest.
- Analyzed genomic copy number changes in transgenic mouse pancreatic tumors.
Main Results:
- Array CGH efficiently mapped LOH9 and LOH16 to refined loci.
- Identified new recurrent copy-number decreases on chromosomes 6, 8, and 14.
- Detected copy-number increases on chromosomes 2 and 4.
- Suggested candidate oncogenes/tumor suppressors (CYP24, PFDN4, STMN1, CDKN1B, PPP2R3, FSTL1).
- Demonstrated influence of irradiation and genetic background on aberration spectrum.
Conclusions:
- Array CGH is a powerful tool for high-resolution genome-wide copy number analysis.
- New genomic regions and candidate genes associated with pancreatic tumor progression were identified.
- Findings provide insights into the genetic basis of pancreatic tumorigenesis and potential therapeutic targets.
