The RINGS Resource for Glycome Informatics Analysis and Data Mining on the Web
The RINGS Resource for Glycome Informatics Analysis and Data Mining on the Web
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DOI：
10.1089/omi.2009.0129
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发表时间：
2010-08-01
影响因子：
3.3
通讯作者：
Aoki-Kinoshita, Kiyoko F.
中科院分区：
文献类型：
--
作者：
Akune, Yukie;Hosoda, Masae;Aoki-Kinoshita, Kiyoko F.
在生物信息学领域，已经开发了许多计算机算法和数据挖掘技术用于基因预测、蛋白质-蛋白质相互作用分析、序列分析和蛋白质折叠预测，仅举几例。这类研究已经从基因组学领域分支出来，创造了后基因组时代的转录组学、蛋白质组学、代谢组学和糖组学研究领域。在糖组学领域，鉴于聚糖结构的复杂性及其各种构象的单糖分支，已经开发了新的数据挖掘和算法方法，试图更好地理解聚糖。然而，这些方法并没有全部被实施为工具，使得糖生物学社区可以在他们的研究中利用它们。因此，我们开发了RINGS（索卡的糖体信息资源）作为糖生物学家使用最新数据挖掘和算法技术分析数据的免费网络资源。它提供了许多工具，包括称为DrawRINGS的2D聚糖绘制和查询界面，用于从给定聚糖结构动态计算N-聚糖生物合成途径的聚糖途径预测器（GPP）工具，以及数据挖掘工具Glycan Miner Tool和Profile PSTMM。将描述RINGS提供的这些工具和其他实用程序。RINGS的URL是http://rings.t.soka.ac.jp/。
In the bioinformatics field, many computer algorithmic and data mining technologies have been developed for gene prediction, protein-protein interaction analysis, sequence analysis, and protein folding predictions, to name a few. This kind of research has branched off from the genomics field, creating the transcriptomics, proteomics, metabolomics, and glycomics research areas in the postgenomic age. In the glycomics field, given the complexity of glycan structures with their branches of monosaccharides in various conformations, new data mining and algorithmic methods have been developed in an attempt to gain a better understanding of glycans. However, these methods have not all been implemented as tools such that the glycobiology community may utilize them in their research. Thus, we have developed RINGS (Resource for INformatics of Glycomes at Soka) as a freely available Web resource for glycobiologists to analyze their data using the latest data mining and algorithmic techniques. It provides a number of tools including a 2D glycan drawing and querying interface called DrawRINGS, a Glycan Pathway Predictor (GPP) tool for dynamically computing the N-glycan biosynthesis pathway from a given glycan structure, and data mining tools Glycan Miner Tool and Profile PSTMM. These tools and other utilities provided by RINGS will be described. The URL for RINGS is http://rings.t.soka.ac.jp/.