ArticleScientific data2022
ICEO, a biological ontology for representing and analyzing bacterial integrative and conjugative elements.
Article in Scientific data, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed, 13 citations in OpenAlex.
- ICEAntibiotics (Basel, Switzerland) · 2025Article
- Comprehensive profiling of integrative conjugative elements (ICEs) in Mollicutes: distinct catalysts of gene flow and genome shaping.NAR genomics and bioinformatics · 2025Article
- Mobile genetic elements inJournal of bacteriology · 2025Review
- Enriching the FIDEO ontology with food-drug interactions from online knowledge sources.Journal of biomedical semantics · 2024Article
- Breaking the ICE: an easy workflow for identifying and analyzing integrative and conjugative elements in bacterial genomes.Functional & integrative genomics · 2022Article
- Deciphering probiotic potential: a comprehensive guide to probiogenomic analyses.Future microbiologyReview
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Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
Abstract
Bacterial integrative and conjugative elements (ICEs) are highly modular mobile genetic elements critical to the horizontal transfer of antibiotic resistance and virulence factor genes. To better understand and analyze the ongoing increase of ICEs, we developed an Integrative and Conjugative Element Ontology (ICEO) to represent the gene components, functional modules, and other information of experimentally verified ICEs. ICEO is aligned with the upper-level Basic Formal Ontology and reuses existing reliable ontologies. There are 31,081 terms, including 26,814 classes from 14 ontologies and 4128 ICEO-specific classes, representing the information of 271 known experimentally verified ICEs from 235 bacterial strains in ICEO currently and 311 predicted ICEs of 272 completely sequenced Klebsiella pneumoniae strains. Three ICEO use cases were illustrated to investigate complex joins of ICEs and their harboring antibiotic resistance or virulence factor genes by using SPARQL or DL query. ICEO has been approved as an Open Biomedical Ontology library ontology. It may be dedicated to facilitating systematical ICE knowledge representation, integration, and computer-assisted queries.
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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.