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Formal Concept Analysis of Disease Similarity
Previous work shows that gene associations and network properties common between pairs of diseases can provide molecular evidence of comorbidity, but relationships among diseases may extend to larger groups. Formal concept analysis allows the study of multiple diseases based on a concept lattice who...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Medical Informatics Association
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3392047/ https://www.ncbi.nlm.nih.gov/pubmed/22779049 |
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author | Keller, Benjamin J. Eichinger, Felix Kretzler, Matthias |
author_facet | Keller, Benjamin J. Eichinger, Felix Kretzler, Matthias |
author_sort | Keller, Benjamin J. |
collection | PubMed |
description | Previous work shows that gene associations and network properties common between pairs of diseases can provide molecular evidence of comorbidity, but relationships among diseases may extend to larger groups. Formal concept analysis allows the study of multiple diseases based on a concept lattice whose structure indicates gene set commonality. We use the concept lattice for gene associations to evaluate the complexity of the relationships among diseases, and to identify concepts whose gene sets are candidates for further functional analysis. For this, we define a heuristic on the lattice structure that allows the identification of concepts whose gene sets indicate strong relationships among the included diseases, which are distinguished from other diseases in the family. Applying this approach to a family of renal diseases we demonstrate that this approach finds gene sets that may be promising for studying common (and differing) mechanism among a family of comorbid or phenotypically related diseases. |
format | Online Article Text |
id | pubmed-3392047 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | American Medical Informatics Association |
record_format | MEDLINE/PubMed |
spelling | pubmed-33920472012-07-09 Formal Concept Analysis of Disease Similarity Keller, Benjamin J. Eichinger, Felix Kretzler, Matthias AMIA Jt Summits Transl Sci Proc Articles Previous work shows that gene associations and network properties common between pairs of diseases can provide molecular evidence of comorbidity, but relationships among diseases may extend to larger groups. Formal concept analysis allows the study of multiple diseases based on a concept lattice whose structure indicates gene set commonality. We use the concept lattice for gene associations to evaluate the complexity of the relationships among diseases, and to identify concepts whose gene sets are candidates for further functional analysis. For this, we define a heuristic on the lattice structure that allows the identification of concepts whose gene sets indicate strong relationships among the included diseases, which are distinguished from other diseases in the family. Applying this approach to a family of renal diseases we demonstrate that this approach finds gene sets that may be promising for studying common (and differing) mechanism among a family of comorbid or phenotypically related diseases. American Medical Informatics Association 2012-03-19 /pmc/articles/PMC3392047/ /pubmed/22779049 Text en ©2012 AMIA - All rights reserved. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose |
spellingShingle | Articles Keller, Benjamin J. Eichinger, Felix Kretzler, Matthias Formal Concept Analysis of Disease Similarity |
title | Formal Concept Analysis of Disease Similarity |
title_full | Formal Concept Analysis of Disease Similarity |
title_fullStr | Formal Concept Analysis of Disease Similarity |
title_full_unstemmed | Formal Concept Analysis of Disease Similarity |
title_short | Formal Concept Analysis of Disease Similarity |
title_sort | formal concept analysis of disease similarity |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3392047/ https://www.ncbi.nlm.nih.gov/pubmed/22779049 |
work_keys_str_mv | AT kellerbenjaminj formalconceptanalysisofdiseasesimilarity AT eichingerfelix formalconceptanalysisofdiseasesimilarity AT kretzlermatthias formalconceptanalysisofdiseasesimilarity |