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Related Experiment Videos

FSDB: a frameshift signal database.

Sanghoon Moon1, Yanga Byun, Kyungsook Han

  • 1School of Computer Science and Engineering, Inha University, Inchon 402-751, Republic of Korea.

Computational Biology and Chemistry
|July 17, 2007
PubMed
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Programmed frameshifting, a key gene expression mechanism in viruses and bacteria, is now more accessible with FSDB. This new Frameshift Signal Database compiles data and offers tools to study this complex recoding event.

Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • Programmed frameshifting is a recoding event essential for gene expression in many organisms, particularly viruses and bacteria.
  • The precise mechanisms of programmed frameshifting remain incompletely understood, and dedicated databases are scarce.
  • This process involves a ribosome shifting its reading frame at specific signals within mRNA, often between overlapping genes.

Purpose of the Study:

  • To develop a comprehensive database, FSDB (Frameshift Signal Database), for programmed ribosomal frameshifting.
  • To provide a centralized resource for experimentally verified and computationally predicted frameshifting data.
  • To offer tools for analyzing and identifying frameshift sites in genomic sequences.

Main Methods:

Related Experiment Videos

  • Compilation of experimentally known and computationally predicted programmed frameshifting data.
  • Development of FSDB, a database featuring graphical views of frameshift signals and associated genes.
  • Integration of FSFinder, a program for identifying programmed frameshift sites in genomic sequences.

    • Main Results:

    • FSDB has been created as a comprehensive repository for programmed ribosomal frameshifting information.
    • The database offers a graphical interface for visualizing frameshift signals and gene expression.
    • FSFinder is available for users to detect potential frameshift sites within genomic data.

    Conclusions:

    • FSDB serves as a valuable and freely accessible resource for researchers studying programmed ribosomal frameshifting.
    • The database and associated tools enhance the study of gene expression mechanisms in various organisms.
    • FSDB facilitates further investigation into the complex phenomenon of programmed frameshifting.