Modeling ncRNA-mediated circuits in cell fate decision

Xiaojun Tian, Manuela Vanegas Ferro, Hanah Goetz

Research output: Chapter in Book/Report/Conference proceedingChapter

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.

Original languageEnglish (US)
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages411-426
Number of pages16
DOIs
StatePublished - Jan 1 2019

Publication series

NameMethods in Molecular Biology
Volume1912
ISSN (Print)1064-3745

Fingerprint

Untranslated RNA
MicroRNAs
Messenger RNA
Synthetic Biology
Biological Phenomena
Transcription Factors

Keywords

  • Bistability
  • Cell fate decision
  • Competing endogenous mRNA
  • Mathematical modeling
  • Posttranscriptional
  • Ultrasensitivity

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Tian, X., Ferro, M. V., & Goetz, H. (2019). Modeling ncRNA-mediated circuits in cell fate decision. In Methods in Molecular Biology (pp. 411-426). (Methods in Molecular Biology; Vol. 1912). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-8982-9_16

Modeling ncRNA-mediated circuits in cell fate decision. / Tian, Xiaojun; Ferro, Manuela Vanegas; Goetz, Hanah.

Methods in Molecular Biology. Humana Press Inc., 2019. p. 411-426 (Methods in Molecular Biology; Vol. 1912).

Research output: Chapter in Book/Report/Conference proceedingChapter

Tian, X, Ferro, MV & Goetz, H 2019, Modeling ncRNA-mediated circuits in cell fate decision. in Methods in Molecular Biology. Methods in Molecular Biology, vol. 1912, Humana Press Inc., pp. 411-426. https://doi.org/10.1007/978-1-4939-8982-9_16
Tian X, Ferro MV, Goetz H. Modeling ncRNA-mediated circuits in cell fate decision. In Methods in Molecular Biology. Humana Press Inc. 2019. p. 411-426. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-8982-9_16
Tian, Xiaojun ; Ferro, Manuela Vanegas ; Goetz, Hanah. / Modeling ncRNA-mediated circuits in cell fate decision. Methods in Molecular Biology. Humana Press Inc., 2019. pp. 411-426 (Methods in Molecular Biology).
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