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Modeling ncRNA-Mediated Circuits in Cell Fate Decision

  • Xiao-Jun TianEmail author
  • Manuela Vanegas Ferro
  • Hanah Goetz
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1912)

Abstract

Noncoding RNAs (ncRNAs) play critical roles in essential cell fate decisions. However, the exact molecular mechanisms underlying ncRNA-mediated bistable switches remain elusive and controversial. In recent years, systematic mathematical and quantitative experimental analyses have made significant contributions on elucidating the molecular mechanisms of controlling ncRNA-mediated cell fate decision processes. In this chapter, we review and summarize the general framework of mathematical modeling of ncRNA in a pedagogical way and the application of this general framework on real biological processes. We discuss the emerging properties resulting from the reciprocal regulation between mRNA, miRNA, and competing endogenous mRNA (ceRNA), as well as the role of mathematical modeling of ncRNA in synthetic biology. Both the positive feedback loops between ncRNAs and transcription factors and the emerging properties from the miRNA-mRNA reciprocal regulation enable bistable switches to direct cell fate decision.

Key words

Ultrasensitivity Competing endogenous mRNA Posttranscriptional Mathematical modeling Bistability Cell fate decision 

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Xiao-Jun Tian
    • 1
    Email author
  • Manuela Vanegas Ferro
    • 1
  • Hanah Goetz
    • 1
  1. 1.School of Biological and Health Systems EngineeringArizona State UniversityTempeUSA

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