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Analysis of allele-specific gene expression.

Julian C Knight1

  • 1Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK.

Methods in Molecular Biology (Clifton, N.J.)
|August 5, 2006
PubMed
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Analyzing allele-specific gene expression reveals widespread allelic differences in nonimprinted genes. Sensitive methods are crucial for detecting these modest effects and identifying regulatory elements.

Area of Science:

  • Genomics
  • Molecular Biology
  • Gene Regulation

Background:

  • Allele-specific gene expression (ASGE) is key to understanding genomic imprinting.
  • Growing evidence shows ASGE is prevalent in autosomal nonimprinted genes.
  • ASGE analysis helps identify regulatory polymorphisms and functional haplotypes.

Purpose of the Study:

  • To review strategic approaches for analyzing allele-specific gene expression.
  • To present protocols for in vivo analysis of ASGE.
  • To highlight the importance of sensitive and specific techniques.

Main Methods:

  • Review of strategic approaches for ASGE analysis.
  • Protocols for in vivo analysis.
  • Methods include assessing relative allelic abundance of transcribed RNA.

Related Experiment Videos

  • Methods include chromatin immunoprecipitation to analyze transcription factor recruitment and Pol II loading.

    • Main Results:

    • Allele-specific effects are generally of modest magnitude.
    • High sensitivity and specificity are required for accurate ASGE analysis.
    • The reviewed methods enable sensitive detection of allelic expression differences.

    Conclusions:

    • Strategic analysis of allele-specific gene expression is vital for genomic research.
    • In vivo protocols provide practical methods for studying ASGE.
    • Understanding ASGE in nonimprinted genes advances knowledge of gene regulation and genetic variation.