ArticleBioinformatics (Oxford, England)2007
Manual curation is not sufficient for annotation of genomic databases.
Article in Bioinformatics (Oxford, England), 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 122 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
122 citing papers in PubMed.
- Empowering biological knowledgebases: advances in human-in-the-loop AI-driven literature curation.Bioinformatics advances · 2026Review
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- Harnessing PubMed User Query Logs for Post Hoc Explanations of Recommended Similar Articles.ArXiv · 2024Article
- PubMed and beyond: biomedical literature search in the age of artificial intelligence.EBioMedicine · 2024Review
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- Ensemble of deep learning language models to support the creation of living systematic reviews for the COVID-19 literature.Systematic reviews · 2023Article
- BLAB2CancerKD: a knowledge graph database focusing on the association between lactic acid bacteria and cancer, but beyond.Database : the journal of biological databases and curation · 2023Article
- Expanding a database-derived biomedical knowledge graph via multi-relation extraction from biomedical abstracts.BioData mining · 2022Article
- New reasons for biologists to write with a formal language.Database : the journal of biological databases and curation · 2022Article
- AnthraxKP: a knowledge graph-based, Anthrax Knowledge Portal mined from biomedical literature.Database : the journal of biological databases and curation · 2022Article
- SKIOME Project: a curated collection of skin microbiome datasets enriched with study-related metadata.Database : the journal of biological databases and curation · 2022Article
- Text mining of gene-phenotype associations reveals new phenotypic profiles of autism-associated genes.Scientific reports · 2021Article
- Recent advances of automated methods for searching and extracting genomic variant information from biomedical literature.Briefings in bioinformatics · 2021Review
- Contextualized Protein-Protein Interactions.Patterns (New York, N.Y.) · 2021Article
- Fair trade in building digital knowledge repositories: the knowledge economy as if researchers mattered.Medicine, health care, and philosophy · 2020Article
- Ten tips for a text-mining-ready article: How to improve automated discoverability and interpretability.PLoS biology · 2020Article
- A bacterial phyla dataset for protein function prediction.Data in brief · 2020Article
- Integrating image caption information into biomedical document classification in support of biocuration.Database : the journal of biological databases and curation · 2020Article
- Constructing knowledge graphs and their biomedical applications.Computational and structural biotechnology journal · 2020Review
- Automated assessment of biological database assertions using the scientific literature.BMC bioinformatics · 2019Article
62 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
5 authors.
Funding
Abstract
motivationKnowledge base construction has been an area of intense activity and great importance in the growth of computational biology. However, there is little or no history of work on the subject of evaluation of knowledge bases, either with respect to their contents or with respect to the processes by which they are constructed. This article proposes the application of a metric from software engineering known as the found/fixed graph to the problem of evaluating the processes by which genomic knowledge bases are built, as well as the completeness of their contents.
resultsWell-understood patterns of change in the found/fixed graph are found to occur in two large publicly available knowledge bases. These patterns suggest that the current manual curation processes will take far too long to complete the annotations of even just the most important model organisms, and that at their current rate of production, they will never be sufficient for completing the annotation of all currently available proteomes.
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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.