SICOR: Subgraph Isomorphism Comparison of RNA Secondary Structures

Schmidt Michael; Hamacher Kay; Reinhardt Felix; Lotz Thea S.; Groher Florian; Suess Beatrix; Jager Sven

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SICOR: Subgraph Isomorphism Comparison of RNA Secondary Structures

机译：SICOR：RNA二级结构的子图同构比较

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摘要

RNA aptamer selection during SELEX experiments builds on secondary structural diversity. Advanced structural comparison methods can focus this diversity. We develop SICOR, which uses probabilistic subgraph isomorphisms for graph distances between RNA secondary structure graphs. SICOR outperforms other comparison methods and is applicable to many structural comparisons in experimental design.

机译：SELEX实验期间的RNA适体选择构建了二级结构多样性。先进的结构比较方法可以关注这种多样性。我们开发SICOR，它使用概率的子图同构图中的RNA二级结构图之间的图形距离。 SICOR优于其他比较方法，适用于实验设计中的许多结构比较。

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来源
《IEEE/ACM transactions on computational biology and bioinformatics》 |2020年第6期|2189-2195|共7页
作者
Schmidt Michael; Hamacher Kay; Reinhardt Felix; Lotz Thea S.; Groher Florian; Suess Beatrix; Jager Sven;
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作者单位

Tech Univ Darmstadt Dept Phys D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Phys Dept Comp Sci Dept Biol D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Phys D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Biol D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Biol D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Biol D-64289 Darmstadt Germany;

Tech Univ Darmstadt Dept Biol D-64289 Darmstadt Germany;

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原文格式 PDF
正文语种 eng
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关键词
RNA; Transmission line matrix methods; Probabilistic logic; Measurement; Libraries; Protocols; Forestry; RNA structure comparison; subgraph isomorphism; SELEX; aptamers;

机译：RNA;传输线矩阵方法;概率逻辑;测量;图书馆;林业;RNA结构比较;子图同样;SELEX;适体;适体;适体;适体;

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1. Comparison of Maximum Common Subgraph Isomorphism Algorithms for the Alignment of 2D Chemical Structures [J] . Duesbury Edmund, Holliday John, Willett Peter ChemMedChem . 2018,第6期

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2. Primary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs [J] . Alain Krol, Christiane Branlant, Hans K?ssel, Nucleic acids research . 1981,第17期

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5. RiboFSM: Frequent Subgraph Mining for the Discovery of RNA Structures and Interactions. [D] . Gawronski, Alexander. 2013

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6. Primary and secondary structures of Escherichia coli MRE 600 23S ribosomal RNA. Comparison with models of secondary structure for maize chloroplast 23S rRNA and for large portions of mouse and human 16S mitochondrial rRNAs [O] . Christiane Branlant, Alain Krol, Mohamed Ali Machatt, 1981

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7. Comparison of Maximum Common Subgraph Isomorphism Algorithms for the Alignment of 2D Chemical Structures [O] . Edmund Duesbury, John Holliday, Peter Willett 2017

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8. Comparison of Solid-State Microwave Annealing with Conventional Furnace Annealing of Ion-Implanted SiC; Journal article [R] . Sundaresan, S. G., Rao, M. V., Tian, Y., 2007

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SICOR: Subgraph Isomorphism Comparison of RNA Secondary Structures

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