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Nucleic Acid Structure

Nucleic Acid Structure

The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...

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相关实验视频

Updated: Sep 17, 2025

Author Spotlight: Characterizing DNA G-Quadruplex by Bis-3-Chloropiperidine Based Chemical Mapping

Author Spotlight: Characterizing DNA G-Quadruplex by Bis-3-Chloropiperidine Based Chemical Mapping

Published on: May 12, 2023

GMFOLD:用于高通量DNA - 吸收体二次结构分类和机器学习可解释性的子图匹配.

Paolo Climaco¹, Noelle M Mitchell², Matthew J Tyler³

¹Institut für Numerische Simulation, University of Bonn, Bonn, 53115, NRW, Germany.

Mathematical biosciences

|June 29, 2025

概括

此摘要是机器生成的。

我们开发了GMfold,这是一个Python工具,用于快速预测DNA体二次结构. 这种高通量方法有助于分析来自SELEX的大型体池,推进生物传感器和治疗开发.

关键词:

亚普特美尔 (Aptamer) 是一种药物.这些DNA描述符是DNA描述符.在DNA折叠过程中莫茨金的路径是莫茨金的路径.这就是SELEXEX.频谱聚类是指光谱的聚类.副图匹配的部分图.主题建模主题建模

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相关实验视频

Last Updated: Sep 17, 2025

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Published on: May 12, 2023

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科学领域:

生物技术是生物技术.
计算生物学计算生物学
分子生物学分子生物学

背景情况:

胺体是DNA分子,可以以高亲和力结合目标.
预测DNA二次结构对于理解体功能至关重要.
像mfold这样的现有工具不适合对大型aptamer池进行高通量分析.

研究的目的:

开发一种高通量计算方法,用于预测DNA体二次结构.
为了实现对数千个DNA序列的实时分析,以进行aptamer选择.
为了促进机器学习的整合到aptamer的发现和设计.

主要方法:

开发了GMfold,这是一个用于高通量aptamer二次结构确定的Python代码.
利用子图匹配方法,根据结构相似性分组aptamer候选物.
通过结合子图匹配概念来改进SeqFold开源代码.
作为最低能量的二分位子图匹配,表示二次结构.

主要成果:

GMfold使得DNA二次结构的高通量预测成为可能.
新的方法允许基于二次结构的数千个DNA序列进行比较.
这种方法对于分析由SELEX生成的大型序列池是有效的.

结论:

改进的GMfold和SeqFold为aptamer二次结构分析提供了高效的工具.
这些计算进步支持基于机器学习的aptamer选择.
这项工作是开发改进的aptamer生物传感器和治疗方法的基础.