Laboratoire de l'Informatique du Parallélisme, Ecole Normale Supérieure Lyon, Lyon, France.
Plant Cell. 2011 Dec;23(12):4318-33. doi: 10.1105/tpc.111.092619. Epub 2011 Dec 23.
Flower patterning is determined by a complex molecular network but how this network functions remains to be elucidated. Here, we develop an integrative modeling approach that assembles heterogeneous data into a biologically coherent model to allow predictions to be made and inconsistencies among the data to be found. We use this approach to study the network underlying sepal development in the young flower of Arabidopsis thaliana. We constructed a digital atlas of gene expression and used it to build a dynamical molecular regulatory network model of sepal primordium development. This led to the construction of a coherent molecular network model for lateral organ polarity that fully recapitulates expression and interaction data. Our model predicts the existence of three novel pathways involving the HD-ZIP III genes and both cytokinin and ARGONAUTE family members. In addition, our model provides predictions on molecular interactions. In a broader context, this approach allows the extraction of biological knowledge from diverse types of data and can be used to study developmental processes in any multicellular organism.
花的模式形成由一个复杂的分子网络决定，但这个网络如何运作仍有待阐明。在这里，我们开发了一种综合建模方法，将异质数据组装成一个具有生物一致性的模型，以便进行预测，并发现数据之间的不一致。我们使用这种方法来研究拟南芥幼花花被片发育的基础网络。我们构建了一个基因表达的数字图谱，并利用它来构建花被片原基发育的动态分子调控网络模型。这导致了一个完整的侧生器官极性的连贯分子网络模型的构建，该模型充分再现了表达和相互作用数据。我们的模型预测了涉及 HD-ZIP III 基因以及细胞分裂素和 ARGONAUTE 家族成员的三个新途径的存在。此外，我们的模型还提供了关于分子相互作用的预测。从更广泛的角度来看，这种方法可以从多种类型的数据中提取生物知识，并可用于研究任何多细胞生物的发育过程。
