ArticleJournal of biomedical semantics2014
The zebrafish anatomy and stage ontologies: representing the anatomy and development of Danio rerio.
Article in Journal of biomedical semantics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
47 citing papers in PubMed, 73 citations in OpenAlex.
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- Developmental loss of NMDA receptors results in supernumerary forebrain neurons through delayed maturation of transit-amplifying neuroblasts.Scientific reports · 2024Article
- Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium.Database : the journal of biological databases and curation · 2023Article
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- The Superfund Research Program Analytics Portal: linking environmental chemical exposure to biological phenotypes.Scientific data · 2023Article
- Normal Table of Xenopus development: a new graphical resource.Development (Cambridge, England) · 2022Article
- Contribution of model organism phenotypes to the computational identification of human disease genes.Disease models & mechanisms · 2022Article
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- The Xenopus phenotype ontology: bridging model organism phenotype data to human health and development.BMC bioinformatics · 2022Article
- Zebrafish as an Animal Model for Testing Agents with Antidepressant Potential.Life (Basel, Switzerland) · 2021Review
- Planarian Anatomy Ontology: a resource to connect data within and across experimental platforms.Development (Cambridge, England) · 2021Article
- Normal stages of embryonic development of a brood parasite, the rosy bitterling Rhodeus ocellatus (Teleostei: Cypriniformes).Journal of morphology · 2021Article
- The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals.Nucleic acids research · 2021Article
- The Ontology of the Amphioxus Anatomy and Life Cycle (AMPHX).Frontiers in cell and developmental biology · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
backgroundThe Zebrafish Anatomy Ontology (ZFA) is an OBO Foundry ontology that is used in conjunction with the Zebrafish Stage Ontology (ZFS) to describe the gross and cellular anatomy and development of the zebrafish, Danio rerio, from single cell zygote to adult. The zebrafish model organism database (ZFIN) uses the ZFA and ZFS to annotate phenotype and gene expression data from the primary literature and from contributed data sets.
resultsThe ZFA models anatomy and development with a subclass hierarchy, a partonomy, and a developmental hierarchy and with relationships to the ZFS that define the stages during which each anatomical entity exists. The ZFA and ZFS are developed utilizing OBO Foundry principles to ensure orthogonality, accessibility, and interoperability. The ZFA has 2860 classes representing a diversity of anatomical structures from different anatomical systems and from different stages of development.
conclusionsThe ZFA describes zebrafish anatomy and development semantically for the purposes of annotating gene expression and anatomical phenotypes. The ontology and the data have been used by other resources to perform cross-species queries of gene expression and phenotype data, providing insights into genetic relationships, morphological evolution, and models of human disease.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.