Sfold网络服务器上的结构聚类特征。

Structure clustering features on the Sfold Web server.

作者信息

Chan Chi Yu, Lawrence Charles E, Ding Ye

机构信息

Bioinformatics Center, Wadsworth Center, New York State Department of Health, Albany, 12208, USA.

出版信息

Bioinformatics. 2005 Oct 15;21(20):3926-8. doi: 10.1093/bioinformatics/bti632. Epub 2005 Aug 18.

DOI:10.1093/bioinformatics/bti632

PMID:16109749

Abstract

UNLABELLED

The energy landscape of RNA secondary structures is often complex, and the Boltzmann-weighted ensemble usually contains distinct clusters. Furthermore, the minimum free energy structure often lies outside of the cluster containing the structure determined by comparative sequence analysis. We have developed procedures to characterize and visualize the Boltzmann-weighted ensemble, and have made them available on the Sfold Web server. The new features on the Web server include clustering statistics, ensemble and cluster centroids, multi-dimensional scaling display and energy landscape representation of the Boltzmann-weighted ensemble.

AVAILABILITY

http://sfold.wadsworth.org; http://www.bioinfo.rpi.edu/applications/sfold

CONTACT

chanc@wadsworth.org.

摘要

未加标注

RNA二级结构的能量格局通常很复杂，玻尔兹曼加权系综通常包含不同的簇。此外，最小自由能结构往往位于通过比较序列分析确定结构的簇之外。我们已经开发出了表征和可视化玻尔兹曼加权系综的程序，并将其发布在Sfold网络服务器上。该网络服务器的新功能包括聚类统计、系综和簇中心、多维缩放显示以及玻尔兹曼加权系综的能量格局表示。