Advertisement

Profiling microRNA Expression with the Illumina BeadChip Platform

  • Julissa Tsao
  • Patrick Yau
  • Neil Winegarden
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 632)

Abstract

The complex mechanisms involved in the regulation of both gene and protein expressions are still being understood. When microarray technology was first introduced during the early to mid 1990s, they heralded a tremendous opportunity to study transcription on a global scale. Despite this promise, however, one thing that has become clear is that the expression of protein coding genes is not the only aspect of the transcriptome that researchers need pay attention to. Small noncoding RNAs, such as microRNAs, are now known to play a pivotal role in the control of both gene and protein expressions. Each microRNA may act upon a plurality of different targets, which makes the measurement of their expression levels a highly important part of understanding the entire cellular response. It has only been recently, however, that advancements and modifications to microarray technology have allowed us to study these important molecules in a high throughput and parallel manner.

Key words

miRNA profiling miRNA microarrays DASL assay BeadChip 

References

  1. 1.
    Schena M, Shalon D, Davis RW, Brown PO (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270:467-470PubMedCrossRefGoogle Scholar
  2. 2.
    Gygi SP, Rochon Y, Franza BR, Aebersold R (1999) Correlation between protein and mRNA abundance in yeast. Mol Cell Biol 19:1720-1730PubMedGoogle Scholar
  3. 3.
    Lewis BP, Burge CB, Bartel DP (2005) Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120:15-20PubMedCrossRefGoogle Scholar
  4. 4.
    Zhao Y, Srivastava D (2007) A developmental view of microRNA function. Trends Biochem Sci 32:189-197PubMedCrossRefGoogle Scholar
  5. 5.
    Baek D, Villen J, Shin C, Camargo FD, Gygi SP, Bartel DP (2008) The impact of microRNAs on protein output. Nature 455:64-71PubMedCrossRefGoogle Scholar
  6. 6.
    Brennecke J, Hipfner DR, Stark A, Russell RB, Cohen SM (2003) Bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell 113:25-36PubMedCrossRefGoogle Scholar
  7. 7.
    Xu P, Vernooy SY, Guo M, Hay BA (2003) The Drosophila microRNA Mir-14 suppresses cell death and is required for normal fat metabolism. Curr Biol 13:790-795PubMedCrossRefGoogle Scholar
  8. 8.
    Dostie J, Mourelatos Z, Yang M, Sharma A, Dreyfuss G (2003) Numerous microRNPs in neuronal cells containing novel microRNAs. RNA 9:180-186PubMedCrossRefGoogle Scholar
  9. 9.
    Yang B, Lin H, Xiao J, Lu Y, Luo X, Li B, Zhang Y, Xu C, Bai Y, Wang H, Chen G, Wang Z (2007) The muscle-specific microRNA miR-1 regulates cardiac arrhythmogenic potential by targeting GJA1 and KCNJ2. Nat Med 13:486-491PubMedCrossRefGoogle Scholar
  10. 10.
    Calin GA, Croce CM (2006) MicroRNA signatures in human cancers. Nat Rev Cancer 6:857-866PubMedCrossRefGoogle Scholar
  11. 11.
    Esquela-Kerscher A, Slack FJ (2006) Oncomirs - microRNAs with a role in cancer. Nat Rev Cancer 6:259-269PubMedCrossRefGoogle Scholar
  12. 12.
    Chen J, Lozach J, Garcia EW, Barnes B, Luo S, Mikoulitch I, Zhou L, Schroth G, Fan JB (2008) Highly sensitive and specific microRNA expression profiling using BeadArray technology. Nucleic Acids Res 36:e87PubMedCrossRefGoogle Scholar

Copyright information

© Humana Press, a part of Springer Science+Business Media, LLC 2010

Authors and Affiliations

  • Julissa Tsao
    • 1
  • Patrick Yau
    • 1
  • Neil Winegarden
    • 1
  1. 1.UHN Microarray CenterTorontoCanada

Personalised recommendations