MaHCO: an ontology of the major histocompatibility complex for immunoinformatic applications and text mining
MaHCO: an ontology of the major histocompatibility complex for immunoinformatic applications and text mining
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DOI：
10.1093/bioinformatics/btp306
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发表时间：
2009-08-15
期刊：
影响因子：
5.8
通讯作者：
Blasczyk, Rainer
中科院分区：
文献类型：
--
作者：
DeLuca, David S.;Beisswanger, Elena;Blasczyk, Rainer
动机：与主要组织相容性复合体 (MHC) 相关的高水平多态性对组织相关生物信息学数据提出了挑战，特别是在造血干细胞移植领域。因此，这一研究领域具有从生物医学本体论的持续发展中获益的巨大潜力，生物医学本体论为 MHC 数据相关的通信和可移植性问题提供了结构和定义。 结果：我们介绍了 MaHCO 的设计考虑、方法基础和实施问题，MaHCO 是一种代表主要组织相容性复合物的等位基因和编码分子的本体论。对于人类免疫遗传学来说，重要的是，它包括详细的人类白细胞抗原 (HLA) 分类。然后，我们提出了一个本体浏览器、用于免疫遗传学事实和文档检索的搜索界面，以及基于 MaHCO 的语义元数据注释语言规范。这些用例旨在证明本体驱动的生物信息学在免疫遗传学领域的实用性。
Motivation: The high level of polymorphism associated with the major histocompatibility complex (MHC) poses a challenge to organizing associated bioinformatic data, particularly in the area of hematopoietic stem cell transplantation. Thus, this area of research has great potential to profit from the ongoing development of biomedical ontologies, which offer structure and definition to MHC-data related communication and portability issues.Results: We introduce the design considerations, methodological foundations and implementational issues underlying MaHCO, an ontology which represents the alleles and encoded molecules of the major histocompatibility complex. Importantly for human immunogenetics, it includes a detailed level of human leukocyte antigen (HLA) classification. We then present an ontology browser, search interfaces for immunogenetic fact and document retrieval, and the specification of an annotation language for semantic metadata, based on MaHCO. These use cases are intended to demonstrate the utility of ontology-driven bioinformatics in the field of immunogenetics.