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

Transposon insertion site profiling chip (TIP-chip).

Sarah J Wheelan1, Lisa Z Scheifele, Francisco Martínez-Murillo

  • 1High Throughput Biology Center and Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.

Proceedings of the National Academy of Sciences of the United States of America
|November 15, 2006
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

Genome-wide histone humanization in yeast disrupts genome organization, replication, and rDNA stability.

Cell reports·2026
Same author

Unique molecular identifiers don't need to be unique: a collision-aware estimator for RNA-seq quantification.

bioRxiv : the preprint server for biology·2026
Same author

Author Correction: Physiology and immunology of a pig-to-human decedent kidney xenotransplant.

Nature·2026
Same author

Spurious correlation inflates performance in single-cell perturbation prediction.

bioRxiv : the preprint server for biology·2026
Same author

Inhibition of salt-inducible kinases reprograms T cells and antitumor immunity in ovarian cancer.

Nature immunology·2026
Same author

Aging dictates tumor-specific genomic alterations across cancer types.

npj aging·2026

Researchers developed a transposon insertion site profiling chip (TIP-chip) to map mobile element insertions genome-wide. This high-throughput microarray accurately identifies transposon locations in yeast, enabling new insights into genome dynamics.

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Mobile elements, such as transposons, significantly impact genome structure and gene expression.
  • Active transposons are polymorphic within populations, necessitating methods to track their insertions.
  • Understanding transposon dynamics is crucial for studying genome evolution and phenotype.

Purpose of the Study:

  • To develop a simple, genome-wide method for identifying all transposon insertions in a given sample.
  • To create a high-throughput technique for mapping transposon locations.
  • To analyze transposon insertion patterns in different yeast strains.

Main Methods:

  • Design and implementation of a transposon insertion site profiling chip (TIP-chip) based on microarray technology.

Related Experiment Videos

  • Selective amplification of transposon flanking regions.
  • Hybridization of amplified regions to the TIP-chip for locating transposon insertions.

    • Main Results:

    • The TIP-chip successfully mapped Ty1 retrotransposon insertions in yeast laboratory and high-copy strains.
    • All theoretically detectable Ty1 transposons were identified in the FY2 lab strain with minimal false positives.
    • Numerous new Ty1 insertions were mapped in the high-copy strain, revealing its insertion pattern.

    Conclusions:

    • The TIP-chip is an effective high-throughput tool for genome-wide mapping of transposon insertions.
    • This method provides accurate identification of transposon locations, facilitating genomic studies.
    • The TIP-chip enables the discovery of novel transposon copies and the characterization of insertion patterns in various populations.