ArticlePlant & cell physiology2013
The plant ontology as a tool for comparative plant anatomy and genomic analyses.
Article in Plant & cell physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
72 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- Integrating cross-omics research through FAIR Digital Objects with DataPLANT.Journal of integrative bioinformatics · 2026Article
- CartograPlant: bridging genomic, phenotypic, and environmental data to advance plant resilience and eco-evolutionary insight.Genetics · 2026Article
- PaxDb v6.0: reprocessed, LLM-selected, curated protein abundance data across organisms.Nucleic acids research · 2026Article
- Integrating scanned literature and online sources to build a data text collection for plant biodiversity.Biodiversity data journal · 2026Article
- An epidemiological knowledge graph extracted from the World Health Organization's Disease Outbreak News.Scientific data · 2025Article
- Automated annotation of scientific texts for ML-based keyphrase extraction and validation.Database : the journal of biological databases and curation · 2024Article
- Regulation of developmental gatekeeping and cell fate transition by the calpain protease DEK1 in Physcomitrium patens.Communications biology · 2024Article
- Process modeling and simulation ofHeliyon · 2024Article
- Planteome 2024 Update: Reference Ontologies and Knowledgebase for Plant Biology.Nucleic acids research · 2024Article
- TypeTaxonScript: sugarifying and enhancing data structures in biological systematics and biodiversity research.Biology methods & protocols · 2024Article
- Genotype and phenotype data standardization, utilization and integration in the big data era for agricultural sciences.Database : the journal of biological databases and curation · 2023Review
- 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
- Toward a data infrastructure for the Plant Cell Atlas.Plant physiology · 2023Review
- Ontologies for increasing the FAIRness of plant research data.Frontiers in plant science · 2023Review
- EPPO ontology: a semantic-driven approach for plant and pest codes representation.Frontiers in artificial intelligence · 2023Article
- Sainfoin (Frontiers in plant science · 2023Article
- Doing Genetic and Genomic Biology Using the Legume Information System and Associated Resources.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Transcriptomic Insights on the Preventive Action of Apple (cv Granny Smith) Skin Wounding on Superficial Scald Development.International journal of molecular sciences · 2021Article
- A starting guide to root ecology: strengthening ecological concepts and standardising root classification, sampling, processing and trait measurements.The New phytologist · 2021Review
12 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
22 authors.
Funding
Abstract
The Plant Ontology (PO; http://www.plantontology.org/) is a publicly available, collaborative effort to develop and maintain a controlled, structured vocabulary ('ontology') of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and stages of plant development, using the data model adopted by the Gene Ontology. From its original design covering only rice, maize and Arabidopsis, the scope of the PO has been expanded to include all green plants. The PO was the first multispecies anatomy ontology developed for the annotation of genes and phenotypes. Also, to our knowledge, it was one of the first biological ontologies that provides translations (via synonyms) in non-English languages such as Japanese and Spanish. As of Release #18 (July 2012), there are about 2.2 million annotations linking PO terms to >110,000 unique data objects representing genes or gene models, proteins, RNAs, germplasm and quantitative trait loci (QTLs) from 22 plant species. In this paper, we focus on the plant anatomical entity branch of the PO, describing the organizing principles, resources available to users and examples of how the PO is integrated into other plant genomics databases and web portals. We also provide two examples of comparative analyses, demonstrating how the ontology structure and PO-annotated data can be used to discover the patterns of expression of the LEAFY (LFY) and terpene synthase (TPS) gene homologs.
Indexed as
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.