Mapping proteins to disease terminologies: from UniProt to MeSH.
Mapping proteins to disease terminologies: from UniProt to MeSH.
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DOI：
10.1186/1471-2105-9-s5-s3
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发表时间：
2008-04-29
影响因子：
3
通讯作者：
Veuthey AL
中科院分区：
文献类型：
--
作者：
Mottaz A;Yip YL;Ruch P;Veuthey AL
虽然UniProt知识库不是一个面向医学的数据库，但它包含了2,000多种与病理学有关的人类蛋白质的信息。然而，这些注释是不标准的，这损害了生物和临床资源之间的互操作性。为了使临床研究人员能够轻松获取这些数据，我们开发了一种程序，将UniProtKB/Swiss-Prot条目中描述的疾病与MeSH疾病术语联系起来。我们将从UniProtKB/Swiss-Prot条目注释行或相应OMIM条目中提取的疾病名称映射到MeSH。不同的方法进行了评估的一个基准集的200个疾病名称手动映射到MeSH条款。保留过程的性能在精确度和召回率分别为86%和64%。使用相同的程序，Swiss-Prot中的3，000多个疾病名称被映射到MeSH，效率相当。这项研究是首次尝试将UniProtKB中的蛋白质与医学资源联系起来。我们提供的索引将帮助临床医生和研究人员以有效的方式从疾病到基因，从基因到疾病。该映射可在：。
Although the UniProt KnowledgeBase is not a medical-oriented database, it contains information on more than 2,000 human proteins involved in pathologies. However, these annotations are not standardized, which impairs the interoperability between biological and clinical resources. In order to make these data easily accessible to clinical researchers, we have developed a procedure to link diseases described in the UniProtKB/Swiss-Prot entries to the MeSH disease terminology. We mapped disease names extracted either from the UniProtKB/Swiss-Prot entry comment lines or from the corresponding OMIM entry to the MeSH. Different methods were assessed on a benchmark set of 200 disease names manually mapped to MeSH terms. The performance of the retained procedure in term of precision and recall was 86% and 64% respectively. Using the same procedure, more than 3,000 disease names in Swiss-Prot were mapped to MeSH with comparable efficiency. This study is a first attempt to link proteins in UniProtKB to the medical resources. The indexing we provided will help clinicians and researchers navigate from diseases to genes and from genes to diseases in an efficient way. The mapping is available at: .