{"doi":"10.1093/genetics/iyac005","title":"MOET: a web-based gene set enrichment tool at the Rat Genome Database for multiontology and multispecies analyses","abstract":"<jats:title>Abstract</jats:title>\n               <jats:p>Biological interpretation of a large amount of gene or protein data is complex. Ontology analysis tools are imperative in finding functional similarities through overrepresentation or enrichment of terms associated with the input gene or protein lists. However, most tools are limited by their ability to do ontology-specific and species-limited analyses. Furthermore, some enrichment tools are not updated frequently with recent information from databases, thus giving users inaccurate, outdated or uninformative data. Here, we present MOET or the Multi-Ontology Enrichment Tool (v.1 released in April 2019 and v.2 released in May 2021), an ontology analysis tool leveraging data that the Rat Genome Database (RGD) integrated from in-house expert curation and external databases including the National Center for Biotechnology Information (NCBI), Mouse Genome Informatics (MGI), The Kyoto Encyclopedia of Genes and Genomes (KEGG), The Gene Ontology Resource, UniProt-GOA, and others. Given a gene or protein list, MOET analysis identifies significantly overrepresented ontology terms using a hypergeometric test and provides nominal and Bonferroni corrected P-values and odds ratios for the overrepresented terms. The results are shown as a downloadable list of terms with and without Bonferroni correction, and a graph of the P-values and number of annotated genes for each term in the list. MOET can be accessed freely from https://rgd.mcw.edu/rgdweb/enrichment/start.html.</jats:p>","journal":"Genetics","year":2022,"id":16667,"datarank":0.6020311408724532,"base_score":2.70805020110221,"endowment":2.70805020110221,"self_citation_contribution":0.40620753016533157,"citation_network_contribution":0.19582361070712168,"self_endowment_contribution":0.40620753016533157,"citer_contribution":0.19582361070712168,"corpus_percentile":null,"corpus_rank":null,"citation_count":14,"citer_count":8,"citers_with_citation_signal":7,"citers_with_endowment":7,"datacite_reuse_total":2,"is_dataset":false,"is_dataset_confidence":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":122194,"name":"Harika S Nalabolu","orcid":"0000-0002-1289-9979","position":1,"is_corresponding":false},{"id":122195,"name":"Chien-Wei Lin","orcid":"0000-0003-4023-7339","position":2,"is_corresponding":false},{"id":122196,"name":"Matthew J Hoffman","orcid":null,"position":3,"is_corresponding":false},{"id":122197,"name":"Jennifer R Smith","orcid":"0000-0002-6443-9376","position":4,"is_corresponding":false},{"id":122198,"name":"Kent Brodie","orcid":"0000-0002-9984-3619","position":5,"is_corresponding":false},{"id":122199,"name":"Jeffrey L De Pons","orcid":"0000-0001-7783-1556","position":6,"is_corresponding":false},{"id":122200,"name":"Wendy M Demos","orcid":"0000-0002-8037-076X","position":7,"is_corresponding":false},{"id":122201,"name":"Adam C Gibson","orcid":"0000-0001-8301-6590","position":8,"is_corresponding":false},{"id":103855,"name":"G. Thomas Hayman","orcid":"0000-0002-9553-7227","position":9,"is_corresponding":false},{"id":122202,"name":"Morgan L Hill","orcid":"0000-0001-5488-3927","position":10,"is_corresponding":false},{"id":103856,"name":"Mary L. Kaldunski","orcid":"0000-0003-3645-6803","position":11,"is_corresponding":false},{"id":122203,"name":"Logan Lamers","orcid":"0000-0001-9013-7155","position":12,"is_corresponding":false},{"id":103858,"name":"Stanley J. F. Laulederkind","orcid":"0000-0001-5356-4174","position":13,"is_corresponding":false},{"id":122204,"name":"Ketaki Thorat","orcid":"0000-0002-8288-6671","position":14,"is_corresponding":false},{"id":122205,"name":"Jyothi Thota","orcid":"0000-0003-4482-7627","position":15,"is_corresponding":false},{"id":122206,"name":"Monika Tutaj","orcid":"0000-0002-0378-4002","position":16,"is_corresponding":false},{"id":103860,"name":"Marek Tutaj","orcid":"0000-0002-1025-101X","position":17,"is_corresponding":false},{"id":103862,"name":"Shur‐Jen Wang","orcid":"0000-0001-5256-8683","position":18,"is_corresponding":false},{"id":122207,"name":"Stacy Zacher","orcid":"0000-0003-2524-3829","position":19,"is_corresponding":false},{"id":103854,"name":"Melinda R. Dwinell","orcid":"0000-0002-9528-3618","position":20,"is_corresponding":false},{"id":103857,"name":"Anne E. Kwitek","orcid":"0000-0003-1024-4116","position":21,"is_corresponding":false},{"id":103861,"name":"Mahima Vedi","orcid":"0000-0001-5361-6739","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"base_score":2.70805020110221,"endowment":2.70805020110221,"datacite_reuse_total":2,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"35380657","pmcid":"PMC8982048","openalex_id":"https://openalex.org/W4210537230","authors":[],"funders":[{"funder_name":"National Heart, Lung, and Blood Institute","grant_id":"R01LH064541","title":null},{"funder_name":"National Human Genome Research Institute (NHGRI) as founding members of the Alliance of Genome Resources","grant_id":"U24HG010859","title":null},{"funder_name":"NHLBI NIH HHS","grant_id":"R01 HL064541","title":null},{"funder_name":"National Institutes of Health","grant_id":"1R01MH064541-01A1","title":"Prevention of Depression (POD)"},{"funder_name":"National Institutes of Health","grant_id":"5U24HG010859-05","title":"Alliance Central: A platform for sustainable development of next generation genome knowledgebases"}],"total_grants":5,"fwci":1.2127,"citation_percentile":0.77322492,"influential_citations":1,"citation_trend":[{"year":2022,"count":2},{"year":2023,"count":4},{"year":2024,"count":4},{"year":2025,"count":4}],"oa_status":"hybrid","license":"cc-by","oa_locations":[{"url":"https://academic.oup.com/genetics/article-pdf/220/4/iyac005/43256621/iyac005.pdf","host_type":"journal"},{"url":"https://academic.oup.com/genetics/article-pdf/220/4/iyac005/43256621/iyac005.pdf","host_type":"HYBRID"},{"url":"https://academic.oup.com/genetics/article-pdf/220/4/iyac005/43256621/iyac005.pdf","host_type":"publisher"},{"url":"https://academic.oup.com/genetics/advance-article-pdf/doi/10.1093/genetics/iyac005/42321546/iyac005.pdf","host_type":"publisher"},{"url":"https://doi.org/10.1093/genetics/iyac005","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/35380657","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8982048","host_type":"repository"},{"url":"https://europepmc.org/articles/PMC8982048","host_type":"Europe_PMC"},{"url":"https://europepmc.org/articles/PMC8982048?pdf=render","host_type":"Europe_PMC"},{"url":"http://dx.doi.org/10.1093/genetics/iyac005","host_type":""}],"fields_of_study":["Bioinformatics and Genomic Networks","Biomedical Text Mining and Ontologies","Gene expression and cancer classification","Medicine","Biology","Computer Science","0301 basic medicine","0303 health sciences","03 medical and health sciences","Animals","Databases, Genetic","Gene Ontology","Genome","Internet","Mice","Rats","Software"],"mesh_terms":["Animals","Software","Genome","Internet","Databases, Genetic","Mice","Rats","Gene Ontology"],"keywords":["UniProt","KEGG","Gene ontology","Genome","Ontology","Gene Annotation","Database","Biology","Annotation","Gene nomenclature","Computational biology","Gene","Information retrieval","Computer science","Genetics","Taxonomy (biology)","Rat","Web Tool","Gene Set Enrichment","Model Organism Database","Multiple Ontology","Multiple Species Analysis","Internet","Mice","Databases, Genetic","Animals","Knowledgebase and Database Resources","Software","Rats"],"sdg_mappings":[],"linked_datasets":[{"doi":"10.6084/m9.figshare.26747990.v1","title":"Additional file 1 of Distinctive protein expression in elderly livers in a Sprague–Dawley rat model of normothermic ex vivo liver machine perfusion","publisher":"figshare","resource_type":"JournalArticle"},{"doi":"10.6084/m9.figshare.26747990","title":"Additional file 1 of Distinctive protein expression in elderly livers in a Sprague–Dawley rat model of normothermic ex vivo liver machine perfusion","publisher":"figshare","resource_type":"JournalArticle"}],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"go"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-06-02T12:27:55.415224Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}