这是 GlycoQL。
This is GlycoQL.
机构信息
Department of Computer Science, University of Geneva, Geneva 1227, Switzerland.
Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, Geneva 1211, Switzerland.
出版信息
Bioinformatics. 2022 Sep 16;38(Suppl_2):ii162-ii167. doi: 10.1093/bioinformatics/btac500.
MOTIVATION
We have previously designed and implemented a tree-based ontology to represent glycan structures with the aim of searching these structures with a glyco-driven syntax. This resulted in creating the GlySTreeM knowledge-base as a linchpin of the structural matching procedure and we now introduce a query language, called GlycoQL, for the actual implementation of a glycan structure search.
RESULTS
The methodology is described and illustrated with a use-case focused on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) spike protein glycosylation. We show how to enhance site annotation with federated queries involving UniProt and GlyConnect, our glycoprotein database.
AVAILABILITY AND IMPLEMENTATION
动机
我们之前设计并实现了基于树的本体论，旨在使用基于糖基的语法搜索这些结构。这导致创建了 GlySTreeM 知识库，作为结构匹配过程的关键，我们现在引入了一种查询语言，称为 GlycoQL，用于实际执行聚糖结构搜索。
结果
该方法学已被描述，并通过一个专注于严重急性呼吸系统综合征冠状病毒 2（SARS-CoV-2）刺突蛋白糖基化的用例进行了说明。我们展示了如何通过涉及 UniProt 和 GlyConnect（我们的糖蛋白数据库）的联合查询来增强站点注释。
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