ArticleNucleic acids research2018
The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
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.
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Who cites it
78 citing papers in PubMed.
- Genome-phenome association prediction using weighted deep matrix factorization with a multisource graph attention network.Quantitative biology (Beijing, China) · 2026Article
- Advances in root phenotyping: high-throughput imaging, computational tools, and integrative approaches for crop improvement.Journal of experimental botany · 2026Review
- RGPA-GCN: Graph convolutional networks for rice gene-phenotype association prediction.Plant biology (Stuttgart, Germany) · 2026Article
- Harnessing artificial intelligence in plant breeding: innovations in digital phenotyping and breeding methodologies.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Beyond high-throughput: leveraging plant phenotyping to improve understanding and prediction of plant growth through process-based models.The New phytologist · 2026Review
- Genome Database for Vaccinium: a knowledgebase for genetics, genomics, and breeding research.Genetics · 2026Article
- Improving annotation, access, and comparison of nutritional composition data for underutilized crops.Database : the journal of biological databases and curation · 2026Article
- Integrating scanned literature and online sources to build a data text collection for plant biodiversity.Biodiversity data journal · 2026Article
- Comparative genomic analysis of QTL for resistance to Aphanomyces euteiches between pea, lentil, faba bean, and the model species Medicago truncatula.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- AgroLD: a knowledge graph for the plant sciences.BMC genomic data · 2025Article
- The effectiveness of large language models with RAG for auto-annotating trait and phenotype descriptions.Biology methods & protocols · 2025Article
- Automated annotation of scientific texts for ML-based keyphrase extraction and validation.Database : the journal of biological databases and curation · 2024Article
- Crop-GPA: an integrated platform of crop gene-phenotype associations.NPJ systems biology and applications · 2024Article
- Planteome 2024 Update: Reference Ontologies and Knowledgebase for Plant Biology.Nucleic acids research · 2024Article
- PlantPAD: a platform for large-scale image phenomics analysis of disease in plant science.Nucleic acids research · 2024Article
- TaeC: A manually annotated text dataset for trait and phenotype extraction and entity linking in wheat breeding literature.PloS one · 2024Article
- Article
- GallOnt: An ontology for plant gall phenotypes.Biodiversity data journal · 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
18 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
19 authors.
Funding
Abstract
The Planteome project (http://www.planteome.org) provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. The reference ontologies include the Plant Ontology, Plant Trait Ontology and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. The project also provides access to species-specific Crop Ontologies developed by various plant breeding and research communities from around the world. We provide integrated data on plant traits, phenotypes, and gene function and expression from 95 plant taxa, annotated with reference ontology terms. The Planteome project is developing a plant gene annotation platform; Planteome Noctua, to facilitate community engagement. All the Planteome ontologies are publicly available and are maintained at the Planteome GitHub site (https://github.com/Planteome) for sharing, tracking revisions and new requests. The annotated data are freely accessible from the ontology browser (http://browser.planteome.org/amigo) and our data repository.
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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.