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用数据拟合的景观模型来量化秀丽隐杆线虫中的细胞转变。

Quantifying cell transitions in C. elegans with data-fitted landscape models.

机构信息

Mathematics Institute, University of Warwick, Coventry, United Kingdom.

Department of Biosciences, Rice University, Houston, Texas, United States of America.

出版信息

PLoS Comput Biol. 2021 Jun 1;17(6):e1009034. doi: 10.1371/journal.pcbi.1009034. eCollection 2021 Jun.

Abstract

Increasing interest has emerged in new mathematical approaches that simplify the study of complex differentiation processes by formalizing Waddington's landscape metaphor. However, a rational method to build these landscape models remains an open problem. Here we study vulval development in C. elegans by developing a framework based on Catastrophe Theory (CT) and approximate Bayesian computation (ABC) to build data-fitted landscape models. We first identify the candidate qualitative landscapes, and then use CT to build the simplest model consistent with the data, which we quantitatively fit using ABC. The resulting model suggests that the underlying mechanism is a quantifiable two-step decision controlled by EGF and Notch-Delta signals, where a non-vulval/vulval decision is followed by a bistable transition to the two vulval states. This new model fits a broad set of data and makes several novel predictions.

摘要

人们对新的数学方法越来越感兴趣,这些方法通过形式化 Waddington 的景观隐喻来简化复杂的分化过程研究。然而,构建这些景观模型的合理方法仍然是一个悬而未决的问题。在这里,我们通过开发基于突变理论 (CT) 和近似贝叶斯计算 (ABC) 的框架来构建数据拟合景观模型,研究秀丽隐杆线虫的 发育。我们首先确定候选定性景观,然后使用 CT 构建与数据一致的最简单模型,并用 ABC 对其进行定量拟合。结果模型表明,潜在机制是由 EGF 和 Notch-Delta 信号控制的可量化两步决策,其中非 发育/ 发育决定后,通过双稳态过渡到两个 发育状态。这个新模型适合广泛的数据,并做出了一些新颖的预测。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/a8ca/8195438/a0f16bad8b13/pcbi.1009034.g001.jpg

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