Journal Article

MaHCO: an ontology of the major histocompatibility complex for immunoinformatic applications and text mining<sup>†</sup>

David S. DeLuca, Elena Beisswanger, Joachim Wermter, Peter A. Horn, Udo Hahn and Rainer Blasczyk

in Bioinformatics

Volume 25, issue 16, pages 2064-2070
Published in print August 2009 | ISSN: 1367-4803
Published online May 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp306
MaHCO: an ontology of the major histocompatibility complex for immunoinformatic applications and text mining†

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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.

Availability and Implementation: The MaHCO Ontology is available via the BioPortal: http://www.bioontology.org/tools/portal/bioportal.html, and at: http://purl.org/stemnet/

Contact: david_deluca@dfci.harvard.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  5188 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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