ArticleBMC bioinformatics2008
Gene Ontology annotations: what they mean and where they come from.
Article in BMC bioinformatics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 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
75 citing papers in PubMed.
- Evaluating completeness, coherence, and consistency of genome-scale function annotations.Briefings in bioinformatics · 2026Review
- Evaluating network-based algorithms for protein function prediction using plant protein-protein interaction networks.BMC plant biology · 2026Article
- The future is FAIR: a community framework for enhanced data management and data sharing.Database : the journal of biological databases and curation · 2026Article
- Comparative Transcriptome Analysis Revealed Candidate Genes Involved in Fruiting Body Development in the culinary-medicinal Mushroom Pleurotus tuber-regium.Current microbiology · 2026Article
- Reframing ontology fact acquisition during large language model fine-tuning as a time-to-event process.Frontiers in artificial intelligence · 2026Article
- Genome mining identifies Micrococcus yunnanensis strain AZMABM 17 as a potential source of Antioxidant, Anti-Inflammatory, Antidiabetic, and Antiproliferative compounds.Molecular biology reports · 2025Article
- The FAIR AOP roadmap for 2025: Advancing findability, accessibility, interoperability, and re-usability of adverse outcome pathways.Computational toxicology (Amsterdam, Netherlands) · 2025Article
- TopEC: prediction of Enzyme Commission classes by 3D graph neural networks and localized 3D protein descriptor.Nature communications · 2025Article
- Updates implemented in version 4 of the GlyCosmos Glycoscience Portal.Analytical and bioanalytical chemistry · 2025Article
- Review
- 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
- Domain-PFP allows protein function prediction using function-aware domain embedding representations.Communications biology · 2023Article
- Domain-PFP: Protein Function Prediction Using Function-Aware Domain Embedding Representations.bioRxiv : the preprint server for biology · 2023Article
- Anti-inflammatory cytokine stimulation of HMC3 cells: Proteome dataset.Data in brief · 2023Article
- Article
- Optimizing Precision Medicine for Breast Cancer Brain Metastases with Functional Drug Response Assessment.Cancer research communications · 2023Article
- Integrated Bioinformatics Analysis Identifies Crucial Biochemical Processes Shared between Pancreatitis and Pancreatic Ductal Adenocarcinoma.Asian Pacific journal of cancer prevention : APJCP · 2023Article
- Identification of new potential downstream transcriptional targets of the strigolactone pathway including glucosinolate biosynthesis.Plant direct · 2023Article
- A knowledge graph representation learning approach to predict novel kinase-substrate interactions.Molecular omics · 2022Article
- Omics Data and Data Representations for Deep Learning-Based Predictive Modeling.International journal of molecular sciences · 2022Review
15 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
4 authors.
Funding
Abstract
To address the challenges of information integration and retrieval, the computational genomics community increasingly has come to rely on the methodology of creating annotations of scientific literature using terms from controlled structured vocabularies such as the Gene Ontology (GO). Here we address the question of what such annotations signify and of how they are created by working biologists. Our goal is to promote a better understanding of how the results of experiments are captured in annotations, in the hope that this will lead both to better representations of biological reality through annotation and ontology development and to more informed use of GO resources by experimental scientists.
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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.