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

[A protocol of automatic alignment of genome sequences using the program OWEN].

A Iu Ogurtsov

    Biofizika
    |June 28, 2005
    PubMed
    Summary

    This study introduces an automated protocol for aligning long DNA sequences using the OWEN program. The method efficiently aligns numerous moderately similar sequence pairs, demonstrated by its use on human and murine intergenic regions.

    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

    [The properties of sequences involved in insertion and deletion mutagenesis in rodents].

    Biofizikaยท2005
    See all related articles

    Area of Science:

    • Genomics
    • Bioinformatics
    • Computational Biology

    Context:

    • Comparative genomics requires efficient methods for aligning large datasets of DNA sequences.
    • Automated alignment protocols are crucial for handling the scale of modern genomic data.
    • Understanding intergenic regions is key to deciphering gene regulation and evolutionary relationships.

    Purpose:

    • To describe a protocol for automatic hierarchical alignment of long DNA sequences using the OWEN program.
    • To enable the automated alignment of a large number of moderately similar sequence pairs.
    • To apply this protocol to a substantial dataset of orthologous intergenic regions.

    Summary:

    • A command-line based protocol utilizing the OWEN program for automatic hierarchical alignment of long DNA sequences is presented.
    • This protocol facilitates the efficient, automated alignment of numerous moderately similar sequence pairs.
    • The protocol was successfully applied to align 8623 orthologous pairs of intergenic regions between human and murine genomes.

    Impact:

    • Provides a scalable computational tool for comparative genomics research.
    • Facilitates large-scale analysis of genomic sequences, particularly intergenic regions.
    • Enables deeper insights into genome evolution and regulatory element conservation between species.

    Related Experiment Videos