ArticleJournal of biomedical semantics2016
The cellular microscopy phenotype ontology.
Article in Journal of biomedical semantics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Quilt-1M: One Million Image-Text Pairs for Histopathology.Advances in neural information processing systems · 2023Article
- The Twenty Questions of bioimage object analysis.Nature methods · 2023Article
- HistoML, a markup language for representation and exchange of histopathological features in pathology images.Scientific data · 2022Article
- A collaborative semantic-based provenance management platform for reproducibility.PeerJ. Computer science · 2022Article
- Sharing biological data: why, when, and how.FEBS letters · 2021Article
- Ontology-based prediction of cancer driver genes.Scientific reports · 2019Article
- The anatomy of phenotype ontologies: principles, properties and applications.Briefings in bioinformatics · 2018Article
- Sharing and reusing cell image data.Molecular biology of the cell · 2018Article
- MIRO: guidelines for minimum information for the reporting of an ontology.Journal of biomedical semantics · 2018Review
- Data-analysis strategies for image-based cell profiling.Nature methods · 2017Article
- The Image Data Resource: A Bioimage Data Integration and Publication Platform.Nature methods · 2017Article
- Article
- How can functional annotations be derived from profiles of phenotypic annotations?BMC bioinformatics · 2017Article
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Authors and funding
8 authors.
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Abstract
backgroundPhenotypic data derived from high content screening is currently annotated using free-text, thus preventing the integration of independent datasets, including those generated in different biological domains, such as cell lines, mouse and human tissues. DESCRIPTION: We present the Cellular Microscopy Phenotype Ontology (CMPO), a species neutral ontology for describing phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations. CMPO is compatible with related ontology efforts, allowing for future cross-species integration of phenotypic data. CMPO was developed following a curator-driven approach where phenotype data were annotated by expert biologists following the Entity-Quality (EQ) pattern. These EQs were subsequently transformed into new CMPO terms following an established post composition process.
conclusionCMPO is currently being utilized to annotate phenotypes associated with high content screening datasets stored in several image repositories including the Image Data Repository (IDR), MitoSys project database and the Cellular Phenotype Database to facilitate data browsing and discoverability.
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