Research

Computational investigation of epithelial cell dynamic phenotype in vitro

Sean HJ Kim¹ , Sunwoo Park² , Keith Mostov³ , Jayanta Debnath⁴ and C Anthony Hunt^1,2

¹  UCSF/UC Berkeley Joint Graduate Group in Bioengineering, University of California, Berkeley, California 94720, USA

²  Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, California 94143, USA

³  Department of Anatomy, University of California, San Francisco, California 94143, USA

⁴  Department of Pathology, University of California, San Francisco, California 94143, USA

author email corresponding author email

Theoretical Biology and Medical Modelling 2009, 6:8doi:10.1186/1742-4682-6-8

Published:	28 May 2009

Abstract

Background

When grown in three-dimensional (3D) cultures, epithelial cells typically form cystic organoids that recapitulate cardinal features of in vivo epithelial structures. Characterizing essential cell actions and their roles, which constitute the system's dynamic phenotype, is critical to gaining deeper insight into the cystogenesis phenomena.

Methods

Starting with an earlier in silico epithelial analogue (ISEA1) that validated for several Madin-Darby canine kidney (MDCK) epithelial cell culture attributes, we built a revised analogue (ISEA2) to increase overlap between analogue and cell culture traits. Both analogues used agent-based, discrete event methods. A set of axioms determined ISEA behaviors; together, they specified the analogue's operating principles. A new experimentation framework enabled tracking relative axiom use and roles during simulated cystogenesis along with establishment of the consequences of their disruption.

Results

ISEA2 consistently produced convex cystic structures in a simulated embedded culture. Axiom use measures provided detailed descriptions of the analogue's dynamic phenotype. Dysregulating key cell death and division axioms led to disorganized structures. Adhering to either axiom less than 80% of the time caused ISEA1 to form easily identified morphological changes. ISEA2 was more robust to identical dysregulation. Both dysregulated analogues exhibited characteristics that resembled those associated with an in vitro model of early glandular epithelial cancer.

Conclusion

We documented the causal chains of events, and their relative roles, responsible for simulated cystogenesis. The results stand as an early hypothesis–a theory–of how individual MDCK cell actions give rise to consistently roundish, cystic organoids.