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Enumerating RNA Motifs: A Coding-Theoretic Approach

机译:枚举RNA主题:一种编码 - 理论方法

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We consider the problem of enumerating RNA secondary structures that obey a set of structural constraints arising due to the bio-chemical properties of the sugar-phosphate backbone of the strands. The enumeration problem is cast into a framework involving context-free attribute grammars, where the grammars are used to obtain a closed-form expression for the q-generating functions of the constrained objects via the Delest-Fedou "attribute grammar" method. This approach can be viewed as an extension of the paradigm of constrained coding, which was so far used to operates on constraints represented by regular, rather than context-free languages.
机译:我们考虑枚举RNA二级结构的问题,所述RNA二次结构遵循由于股线的糖磷酸盐骨架的生物化学性质而产生的一组结构约束。枚举问题被施展到涉及无内容上下文属性语法的框架中,其中语法用于通过Delest-Fedou“属性语法”方法来获得受约束对象的Q生成功能的闭合表单表达式。该方法可以被视为受约束编码范例的扩展,这是远远用于通过常规而不是无内容语言表示的约束。

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