{"doi":"10.1093/nar/gkab974","title":"ViroidDB: a database of viroids and viroid-like circular RNAs","abstract":"We introduce ViroidDB, a value-added database that attempts to collect all known viroid and viroid-like circular RNA sequences into a single resource. Spanning about 10 000 unique sequences, ViroidDB includes viroids, retroviroid-like elements, small circular satellite RNAs, ribozyviruses, and retrozymes. Each sequence's secondary structure, ribozyme content, and cluster membership are predicted via a custom pipeline optimized for handling circular RNAs. The data can be explored via a purpose-built user interface that features visualizations, multiple sequence alignments, and a portal for downloading bulk data. Users can browse the data by sequence type, taxon, or typo-tolerant search of metadata fields. The database is freely accessible at https://viroids.org.","journal":"Nucleic Acids Research","year":2021,"id":172959,"datarank":0.796997246939861,"base_score":3.258096538021482,"endowment":3.258096538021482,"self_citation_contribution":0.4887144807032224,"citation_network_contribution":0.30828276623663864,"self_endowment_contribution":0.4887144807032224,"citer_contribution":0.30828276623663864,"corpus_percentile":74.74278641602847,"corpus_rank":3266,"citation_count":25,"citer_count":17,"citers_with_citation_signal":14,"citers_with_endowment":14,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.9447,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2021-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":709899,"name":"Uri Neri","orcid":"0000-0003-0894-2484","position":1,"is_corresponding":false},{"id":710686,"name":"Caleb J Oh","orcid":null,"position":2,"is_corresponding":false},{"id":106094,"name":"Peter Simmonds","orcid":"0000-0002-7964-4700","position":3,"is_corresponding":false},{"id":17837,"name":"Eugene V. Koonin","orcid":"0000-0003-3943-8299","position":4,"is_corresponding":false},{"id":63487,"name":"Benjamin D. Lee","orcid":"0000-0002-7133-8397","position":0,"is_corresponding":true}],"reference_count":43,"raw_metadata":null,"created_at":"2026-07-18T23:46:45.768135Z","pmid":"34751403","pmcid":"PMC8728161","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":[]}