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

IMEx: Imperfect Microsatellite Extractor.

Suresh B Mudunuri1, Hampapathalu A Nagarajaram

  • 1Laboratory of Computational Biology, Centre for DNA Fingerprinting and Diagnostics, ECIL Road, Nacharam, Hyderabad 500 076, India.

Bioinformatics (Oxford, England)
|March 24, 2007
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

HPIP and RUFY3 are noncanonical guanine nucleotide exchange factors of Rab5 to regulate endocytosis-coupled focal adhesion turnover.

The Journal of biological chemistry·2023
Same author

Effect of Disease Causing Missense Mutations on Intrinsically Disordered Regions in Proteins.

Protein and peptide letters·2021
Same author

Plant IsomiR Atlas: Large Scale Detection, Profiling, and Target Repertoire of IsomiRs in Plants.

Frontiers in plant science·2019
Same author

Evaluation of Genome-Wide Markers and Orthologous Markers in Brachypodium distachyon.

Methods in molecular biology (Clifton, N.J.)·2017
Same author

A Human Tyrosine Phosphatase Interactome Mapped by Proteomic Profiling.

Journal of proteome research·2017
Same author

ChloroMitoSSRDB 2.00: more genomes, more repeats, unifying SSRs search patterns and on-the-fly repeat detection.

Database : the journal of biological databases and curation·2015

Researchers developed IMEx, a new computational tool for extracting microsatellites (simple sequence repeats) from genome sequences. IMEx efficiently identifies perfect and imperfect microsatellites and their genomic features, aiding in disease gene and genome evolution studies.

Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • Microsatellites, or simple sequence repeats, are vital repetitive DNA elements found in all known genomes.
  • These sequences are implicated in disease genes, serve as molecular markers, and play a role in genome evolution.
  • Studying microsatellite distribution and polymorphism requires effective computational tools for their extraction from genomic data.

Purpose of the Study:

  • To develop a novel computational tool for the efficient extraction of both perfect and imperfect microsatellites from whole genome sequences.
  • To address the limitations of existing tools for microsatellite analysis.

Main Methods:

  • Developed IMEx (Imperfect Microsatellite Extractor), a tool utilizing a string-matching algorithm with a sliding window approach.
  • Screened DNA sequences to identify microsatellites and extract associated features.

Related Experiment Videos

Main Results:

  • IMEx accurately identifies microsatellites (perfect and imperfect), reporting motif, copy number, genomic location, and nearby genes.
  • The tool provides insights into mutational events and other features crucial for in-depth genomic studies.
  • IMEx demonstrates superior sensitivity, efficiency, and utility compared to widely used existing tools.

Conclusions:

  • IMEx is a valuable and efficient tool for microsatellite analysis in genomic research.
  • The tool is accessible as a stand-alone program and a web server for broad scientific use.