ArticleBioinformatics (Oxford, England)2012
vHOG, a multispecies vertebrate ontology of homologous organs groups.
Article in Bioinformatics (Oxford, England), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed.
- An ontological morphological phylogenetic framework for living and extinct ray-finned fishes (Actinopterygii).Anatomical record (Hoboken, N.J. : 2007) · 2026Article
- A Logical Model of Homology for Comparative Biology.Systematic biology · 2020Article
- Human fetal heart specific coexpression network involves congenital heart disease/defect candidate genes.Scientific reports · 2017Article
- Data Sources for Trait Databases: Comparing the Phenomic Content of Monographs and Evolutionary Matrices.PloS one · 2016Article
- ZFIN, The zebrafish model organism database: Updates and new directions.Genesis (New York, N.Y. : 2000) · 2015Article
- What to compare and how: Comparative transcriptomics for Evo-Devo.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2015Review
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- The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations.Database : the journal of biological databases and curation · 2015Article
- Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.Journal of biomedical semantics · 2014Article
- Thematic series on biomedical ontologies in JBMS: challenges and new directions.Journal of biomedical semantics · 2014Review
- The ontology of craniofacial development and malformation for translational craniofacial research.American journal of medical genetics. Part C, Seminars in medical genetics · 2013Review
- Comparative analysis of human and mouse expression data illuminates tissue-specific evolutionary patterns of miRNAs.Nucleic acids research · 2012Article
- Comparative modular analysis of gene expression in vertebrate organs.BMC genomics · 2012Article
- Uberon, an integrative multi-species anatomy ontology.Genome biology · 2012Article
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6 authors.
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Abstract
motivationMost anatomical ontologies are species-specific, whereas a framework for comparative studies is needed. We describe the vertebrate Homologous Organs Groups ontology, vHOG, used to compare expression patterns between species.
resultsvHOG is a multispecies anatomical ontology for the vertebrate lineage. It is based on the HOGs used in the Bgee database of gene expression evolution. vHOG version 1.4 includes 1184 terms, follows OBO principles and is based on the Common Anatomy Reference Ontology (CARO). vHOG only describes structures with historical homology relations between model vertebrate species. The mapping to species-specific anatomical ontologies is provided as a separate file, so that no homology hypothesis is stated within the ontology itself. Each mapping has been manually reviewed, and we provide support codes and references when available. AVAILABILITY AND IMPLEMENTATION: vHOG is available from the Bgee download site (http://bgee.unil.ch/), as well as from the OBO Foundry and the NCBO Bioportal websites. CONTACT: bgee@isb-sib.ch; frederic.bastian@unil.ch.
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