ArticleGenome biology2004
GOToolBox: functional analysis of gene datasets based on Gene Ontology.
Article in Genome biology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 171 papers, 1 of them a synthesis that pooled it.
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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
171 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Graph databases in systems biology: a systematic review.Briefings in bioinformatics · 2024Pooled it
- Generation of 12Computational and structural biotechnology journal · 2025Article
- An Effective DNA Methylation Biomarker Screening Mechanism for Amyotrophic Lateral Sclerosis (ALS) Based on Comorbidities and Gene Function Analysis.Bioengineering (Basel, Switzerland) · 2024Article
- A computational modeling of pri-miRNA expression.PloS one · 2024Article
- Review
- The hitchhikers' guide to RNA sequencing and functional analysis.Briefings in bioinformatics · 2023Article
- A comprehensive survey of the approaches for pathway analysis using multi-omics data integration.Briefings in bioinformatics · 2022Review
- Massively parallel pooled screening reveals genomic determinants of nanoparticle delivery.Science (New York, N.Y.) · 2022Article
- Pathway Analysis for Cancer Research and Precision Oncology Applications.Advances in experimental medicine and biology · 2022Article
- Genome-wide identification and comprehensive analyses ofFrontiers in plant science · 2022Article
- Application of Transcriptomics for Predicting Protein Interaction Networks, Drug Targets and Drug Candidates.Frontiers in medical technology · 2022Review
- From the first touch to biofilm establishment by the human pathogen Candida glabrata: a genome-wide to nanoscale view.Communications biology · 2021Article
- Article
- Graph-based exploitation of gene ontology using GOxploreR for scrutinizing biological significance.Scientific reports · 2020Article
- BiPOm: a rule-based ontology to represent and infer molecule knowledge from a biological process-centered viewpoint.BMC bioinformatics · 2020Article
- Fifteen Years of Gene Set Analysis for High-Throughput Genomic Data: A Review of Statistical Approaches and Future Challenges.Entropy (Basel, Switzerland) · 2020Review
- UFO: A tool for unifying biomedical ontology-based semantic similarity calculation, enrichment analysis and visualization.PloS one · 2020Article
- Identifying significantly impacted pathways: a comprehensive review and assessment.Genome biology · 2019Review
- Metascape provides a biologist-oriented resource for the analysis of systems-level datasets.Nature communications · 2019Article
- GOTrapper: a tool to navigate through branches of gene ontology hierarchy.BMC bioinformatics · 2019Article
111 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
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have developed methods and tools based on the Gene Ontology (GO) resource allowing the identification of statistically over- or under-represented terms in a gene dataset; the clustering of functionally related genes within a set; and the retrieval of genes sharing annotations with a query gene. GO annotations can also be constrained to a slim hierarchy or a given level of the ontology. The source codes are available upon request, and distributed under the GPL license.
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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.