Towards a computational model for-1 eukaryotic frameshifting sites
Towards a computational model for-1 eukaryotic frameshifting sites
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DOI：
10.1093/bioinformatics/btf868
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发表时间：
2003-02-12
期刊：
影响因子：
5.8
通讯作者：
Termier, M
中科院分区：
文献类型：
--
作者：
Bekaert, M;Bidou, L;Termier, M
动机：非传统的解码事件现在得到了很好的认可，但还没有很好的形式化。在这项研究中，我们提出了一个生物信息学分析的真核细胞-1移码，为了模拟这一事件。结果：一个共识模型已经建立了-1移码位点。我们在这里的目的是提供新的约束，使模型更精确。我们展示了如何使用机器学习方法来改进当前模型。我们确定新的属性，可能涉及移码。所发现的每一个特性都经过实验验证。首先，我们确定整体模型的特征，同时满足。然后，我们专注于以下两个组成部分：间隔和滑序列。作为一个主要的结果，我们指出，所谓的间隔子的一级结构的身份是非常重要的。
Motivation: Unconventional decoding events are now well acknowledged, but not yet well formalized. In this study, we present a bioinformatics analysis of eukaryotic -1 frameshifting, in order to model this event.Results: A consensus model has already been established for -1 frameshifting sites. Our purpose here is to provide new constraints which make the model more precise. We show how a machine learning approach can be used to refine the current model. We identify new properties that may be involved in frameshifting. Each of the properties found was experimentally validated. Initially, we identify features of the overall model that are to be simultaneously satisfied. We then focus on the following two components: the spacer and the slippery sequence. As a main result, we point out that the identity of the primary structure of the so-called spacer is of great importance.