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 Experiment Videos

Representational difference analysis.

Yuan Chang1

  • 1Hillman Cancer Center University of Pittsburgh, Pittsburgh, Pennsylvania, USA.

Current Protocols in Molecular Biology
|February 12, 2008
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Proliferative ecotype determines lethal prognosis and therapeutic benefit in urothelial carcinoma.

Cancer·2026
Same author

The metabolic change trajectory of skeletal muscle during the life cycle: arteriovenous metabolomics.

Life medicine·2026
Same author

RNF125 mediates the anti-breast cancer activity of betulinic acid through ubiquitin-dependent degradation of MYH9.

International journal of clinical oncology·2026
Same author

Life-span-dependent transcriptional dynamics of the human heart.

Science advances·2026
Same author

Increasing intrinsic protein disorder improves CD8+ immunogenicity for a SARS CoV2 vaccine candidate antigen.

Molecular therapy : the journal of the American Society of Gene Therapy·2026
Same author

Cross-Tracer Synthesis Model of <sup>11</sup>C-CFT and <sup>18</sup>F-DOPA PET Images from <sup>18</sup>F-FDG for Parkinson's Disease.

IEEE journal of biomedical and health informatics·2026
Same journal

Nondenaturing Polyacrylamide Gel Electrophoresis: Preparation and Analysis of DNA.

Current protocols in molecular biology·2021
Same journal

Purification and Concentration of DNA from Aqueous Solutions: Preparation and Analysis of DNA.

Current protocols in molecular biology·2021
Same journal

Expression of Proteins Using Semliki Forest Virus Vectors: Protein Expression.

Current protocols in molecular biology·2021
Same journal

Methylation and Uracil Interference Assays for Analysis of Protein-DNA Interactions: DNA-Protein Interactions.

Current protocols in molecular biology·2021
Same journal

Separation of Double- and Single-Stranded Nucleic Acids Using Hydroxylapatite Chromatography: Preparation and Analysis of DNA.

Current protocols in molecular biology·2021
Same journal

Pulsed-Field Gel Electrophoresis: Preparation and Analysis of DNA.

Current protocols in molecular biology·2021
See all related articles

Representational difference analysis (RDA) identifies genomic differences by combining subtractive hybridization and PCR. This method enriches for DNA fragments unique to a "tester" genome compared to a "driver" genome.

Area of Science:

  • Genomics
  • Molecular Biology
  • Biotechnology

Background:

  • Comparing complex genomes requires sensitive methods to detect variations.
  • Traditional comparative genomics can be laborious and time-consuming.

Purpose of the Study:

  • To detail the protocol for Representational Difference Analysis (RDA).
  • To highlight RDA's utility in identifying differences between two complex genomes.

Main Methods:

  • RDA utilizes subtractive hybridization and PCR-mediated kinetic enrichment.
  • Protocols involve restriction digestion, linker ligation, and selective amplification of unique DNA fragments.
  • Size-selected tester amplicons are hybridized with an excess of driver amplicons to remove common sequences.

Related Experiment Videos

Main Results:

  • The process enriches for DNA fragments present only in the tester genome.
  • Excess driver DNA effectively removes common genomic sequences.
  • Linker-specific primers amplify the unique tester DNA fragments.

Conclusions:

  • RDA is an effective method for detecting genetic variations between complex genomes.
  • The described protocol provides a robust approach for genomic comparison.