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Search for basonuclin target genes.

Junwen Wang1, Shengliang Zhang, Richard M Schultz

  • 1Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA 19104, USA.

Biochemical and Biophysical Research Communications
|August 22, 2006
PubMed
Summary
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Basonuclin (Bnc1) is a transcription factor that binds DNA using zinc fingers. This study computationally identified new Bnc1 target genes involved in various cellular processes, revealing its distinct regulatory role compared to MYC.

Area of Science:

  • Molecular Biology
  • Genetics
  • Bioinformatics

Background:

  • Basonuclin (Bnc1) is a transcription factor with a unique capacity to interact with promoters of both RNA polymerases I and II.
  • Its DNA-binding activity is mediated by three pairs of conserved zinc fingers, which create specific DNase I footprints on target gene promoters.

Purpose of the Study:

  • To computationally model the DNA-binding module of basonuclin.
  • To identify potential RNA polymerase II target genes regulated by basonuclin in silico.
  • To elucidate the cellular pathways controlled by basonuclin.

Main Methods:

  • Computational modeling of the basonuclin DNA-binding module using DNase footprint data.
  • In silico identification of potential basonuclin target genes in human and mouse promoter databases.

Related Experiment Videos

  • Analysis of gene ontology and pathway enrichment for identified target genes.

    • Main Results:

    • A computational model of the basonuclin DNA-binding module was successfully developed.
    • Numerous potential RNA polymerase II target genes for basonuclin were identified in silico.
    • Basonuclin regulates genes involved in chromatin structure, transcription, ion transport, cell adhesion, signal transduction, and intracellular transport.

    Conclusions:

    • Basonuclin coordinates transcriptional activities across multiple RNA polymerases, similar to MYC.
    • Basonuclin regulates a distinct set of cellular pathways compared to MYC.
    • These findings provide new insights into the regulatory functions of basonuclin in gene expression and cellular processes.