摘要翻译：
形态发生的过程是一个有机体的形状的进化及其部分的分化。这一过程包括许多生物学过程，从胚胎发生到危机后的再生，如截肢或移植。一个基本的理论问题是，这些用于（重新）构建的指令到底位于哪里，它们是如何实现的？我们最近提出了一组概念，旨在回答这些问题，并为形态发生的几何学提供一个适当的数学形式化[1]。首先，我们考虑了形状进化是由表观遗传信息决定的可能性，表观遗传信息负责实现不同类型的细胞事件。其次，我们提出了一套将表观遗传信息转化为细胞事件的指示信号的规则，以及在每个细胞事件后将其转化的规则。接着，我们提出了细胞状态的概念，细胞状态是由细胞表观遗传阵列决定的，细胞事件是细胞状态的变化，并将发育形式化为细胞分裂、细胞生长、细胞死亡、细胞运动和细胞分化过程所对应的5类细胞事件连接的细胞状态图（树）。本文提出了一个形态发生软件，它能够模拟从合子开始的三维胚胎的演化，遵循一套基于我们理论假设的规则，从而为表观遗传密码调控假说提供一个概念证明。该软件根据合子表观遗传谱和选择的发育规律参数创建发育胚胎和相应的细胞事件图。影响胚胎最终形状的规则的变化可能有助于阐明模式形成的主要规律。
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英文标题：
《Morphogenesis Software based on Epigenetic Code Concept》
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作者：
N. Bessonov, O.Butuzova, A.Minarsky, R. Penner, C. Soule, A.
  Tosenberger and N. Morozova
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最新提交年份：
2019
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分类信息：

一级分类：Quantitative Biology        数量生物学
二级分类：Other Quantitative Biology        其他定量生物学
分类描述：Work in quantitative biology that does not fit into the other q-bio classifications
不适合其他q-bio分类的定量生物学工作
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英文摘要：
  The process of morphogenesis is an evolution of the shape of an organism together with the differentiation of its parts. This process encompasses numerous biological processes ranging from embryogenesis to regeneration following crisis such as amputation or transplantation. A fundamental theoretical question is where exactly do these instructions for (re-)construction reside and how are they implemented? We have recently proposed a set of concepts, aiming to respond to these questions and to provide an appropriate mathematical formalization of the geometry of morphogenesis [1]. First, we consider the possibility that evolution of shape is determined by epigenetic information, responsible for realization of different types of cell events. Second, we suggest a set of rules for converting this epigenetic information into instructive signals for cell events for each cell, as well as for transforming it after each cell event. Next we give notions of cell state, determined by its epigenetic array, and cell event, which is a change of cell state, and formalize development as a graph (tree) of cell states connected by 5 types of cell events, corresponding to the processes of cell division, cell growth, cell death, cell movement and cell differentiation. Here we present a Morphogenesis Software capable of simulating the evolution of a 3D embryo starting from zygote, following a set of rules based on our theoretical assumptions, and thus to provide a proof-of-concept for the hypothesis of epigenetic code regulation. The software creates a developing embryo and a corresponding graph of cell events according to the zygotic epigenetic spectrum and chosen parameters of the developmental rules. Variation of rules influencing the resulting shape of an embryo may help elucidating the principal laws underlying pattern formation.
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PDF链接：
https://arxiv.org/pdf/1904.10375