| Complex phylogenetic profiling reveals fundamental genotype-phenotype associations. | |
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MedLine Citation:
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PMID: 18753010 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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We have developed a computational technique refereed to as complex phylogenetic profiling. Our approach combines logic analyses of gene phylogenetic profiles and phenotype data. Logic analysis of phylogenetic profiles identifies sets of proteins whose presence or absence follows certain logic relationships. Our approach identifies phenotype specific logic, i.e. it identifies sets of proteins simultaneously present or absent only in genomes with a given phenotype. For example, for most genomes expressing phenotype A, the presence of protein C presumes the presence of protein B, while for other genomes (not expressing phenotype A) the presence of protein C presumes the absence of protein B. Application of complex phylogenetic profiling to bacterial data and several well studied phenotypes reveals genotype-phenotype associations on the level of fundamental biochemical pathways. |
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Authors:
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Alexey V Antonov; Hans W Mewes |
Publication Detail:
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Type: Journal Article Date: 2008-07-10 |
Journal Detail:
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Title: Computational biology and chemistry Volume: 32 ISSN: 1476-9271 ISO Abbreviation: Comput Biol Chem Publication Date: 2008 Dec |
Date Detail:
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Created Date: 2008-10-30 Completed Date: 2009-01-02 Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 101157394 Medline TA: Comput Biol Chem Country: England |
Other Details:
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Languages: eng Pagination: 412-6 Citation Subset: IM |
Affiliation:
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GSF National Research Center for Environment and Health, Institute for Bioinformatics, Neuherberg, Germany. antonov@gsf.de |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Bacillus subtilis
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genetics Gene Expression Profiling* Genes, Bacterial Genotype Oxygen / metabolism Phenotype Phylogeny* |
| Chemical | |
Reg. No./Substance:
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7782-44-7/Oxygen |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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