{"id":"https://openalex.org/W4404662703","doi":"https://doi.org/10.1093/bib/bbae618","title":"RNADiffFold: generative RNA secondary structure prediction using discrete diffusion models","display_name":"RNADiffFold: generative RNA secondary structure prediction using discrete diffusion models","publication_year":2024,"publication_date":"2024-11-18","ids":{"openalex":"https://openalex.org/W4404662703","doi":"https://doi.org/10.1093/bib/bbae618","pmid":"https://pubmed.ncbi.nlm.nih.gov/39581872"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae618","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbae618","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059260863","display_name":"Zhen Wang","orcid":"https://orcid.org/0000-0002-0859-4363"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Wang","raw_affiliation_strings":["Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111218354","display_name":"Yizhen Feng","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yizhen Feng","raw_affiliation_strings":["College of Information Engineering, Zhejiang University of Technology , Hangzhou 310014, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","College of Information Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology , Hangzhou 310014, Zhejiang ,","institution_ids":["https://openalex.org/I55712492"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"College of Information Engineering, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China","institution_ids":["https://openalex.org/I55712492"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082901680","display_name":"Qingwen Tian","orcid":"https://orcid.org/0000-0001-9012-3327"},"institutions":[{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingwen Tian","raw_affiliation_strings":["College of Computer Science and Technology, Zhejiang University of Technology , Hangzhou 310014, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","College of Computer Science and Technology, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Zhejiang University of Technology , Hangzhou 310014, Zhejiang ,","institution_ids":["https://openalex.org/I55712492"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"College of Computer Science and Technology, Zhejiang University of Technology, Hangzhou 310014, Zhejiang, China","institution_ids":["https://openalex.org/I55712492"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100636817","display_name":"Ziqi Liu","orcid":"https://orcid.org/0000-0002-1506-8185"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ziqi Liu","raw_affiliation_strings":["Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences , Hangzhou 310024, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, Zhejiang, China","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences , Hangzhou 310024, Zhejiang ,","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, Zhejiang, China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100315694","display_name":"Pengju Yan","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Pengju Yan","raw_affiliation_strings":["Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100353823","display_name":"Xiaolin Li","orcid":"https://orcid.org/0000-0002-2440-8356"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaolin Li","raw_affiliation_strings":["Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China"],"affiliations":[{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences , Hangzhou 310018, Zhejiang ,","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Hangzhou Institute of Medicine, Chinese Academy of Sciences, Hangzhou 310018, Zhejiang, China","institution_ids":["https://openalex.org/I19820366"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100315694","https://openalex.org/A5100353823"],"corresponding_institution_ids":["https://openalex.org/I19820366"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.5187,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.90027336,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"26","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9977999925613403,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6579654216766357},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5937604308128357},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.590157687664032},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5508643388748169},{"id":"https://openalex.org/keywords/nucleic-acid-secondary-structure","display_name":"Nucleic acid secondary structure","score":0.5001876354217529},{"id":"https://openalex.org/keywords/generative-model","display_name":"Generative model","score":0.47767385840415955},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.4693646728992462},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.46567294001579285},{"id":"https://openalex.org/keywords/a-priori-and-a-posteriori","display_name":"A priori and a posteriori","score":0.44646549224853516},{"id":"https://openalex.org/keywords/protein-secondary-structure","display_name":"Protein secondary structure","score":0.4255450963973999},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.41076090931892395},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3230065107345581},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10277044773101807}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6579654216766357},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5937604308128357},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.590157687664032},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5508643388748169},{"id":"https://openalex.org/C85468374","wikidata":"https://www.wikidata.org/wiki/Q6589957","display_name":"Nucleic acid secondary structure","level":4,"score":0.5001876354217529},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.47767385840415955},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.4693646728992462},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.46567294001579285},{"id":"https://openalex.org/C75553542","wikidata":"https://www.wikidata.org/wiki/Q178161","display_name":"A priori and a posteriori","level":2,"score":0.44646549224853516},{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.4255450963973999},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.41076090931892395},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3230065107345581},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10277044773101807},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae618","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39581872","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39581872","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11586127","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11586127","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11586127/pdf/bbae618.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae618","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6932346749","display_name":null,"funder_award_id":"2022YFC3600902","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G8764071032","display_name":null,"funder_award_id":"2022YFC","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"}],"funders":[{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":54,"referenced_works":["https://openalex.org/W166206240","https://openalex.org/W282221905","https://openalex.org/W1901129140","https://openalex.org/W1988409793","https://openalex.org/W2017313617","https://openalex.org/W2031352989","https://openalex.org/W2047554231","https://openalex.org/W2086561953","https://openalex.org/W2087377443","https://openalex.org/W2098571862","https://openalex.org/W2101219438","https://openalex.org/W2102017611","https://openalex.org/W2108230379","https://openalex.org/W2141152740","https://openalex.org/W2141157874","https://openalex.org/W2143407915","https://openalex.org/W2147394603","https://openalex.org/W2158714788","https://openalex.org/W2170747616","https://openalex.org/W2472632604","https://openalex.org/W2536860838","https://openalex.org/W2554065905","https://openalex.org/W2725568163","https://openalex.org/W2742645875","https://openalex.org/W2759571676","https://openalex.org/W2764176217","https://openalex.org/W2766848373","https://openalex.org/W2919479895","https://openalex.org/W2945901478","https://openalex.org/W2951298881","https://openalex.org/W2954102902","https://openalex.org/W2990528340","https://openalex.org/W2994632666","https://openalex.org/W3047090055","https://openalex.org/W3126773939","https://openalex.org/W3135161193","https://openalex.org/W3212533323","https://openalex.org/W3217345456","https://openalex.org/W4205945194","https://openalex.org/W4212774754","https://openalex.org/W4287083626","https://openalex.org/W4295312788","https://openalex.org/W4302362590","https://openalex.org/W4362679214","https://openalex.org/W4388539614","https://openalex.org/W6679045638","https://openalex.org/W6766978945","https://openalex.org/W6771520483","https://openalex.org/W6788990321","https://openalex.org/W6796163713","https://openalex.org/W6798447524","https://openalex.org/W6846598164","https://openalex.org/W6851317023","https://openalex.org/W7075630220"],"related_works":["https://openalex.org/W4365211920","https://openalex.org/W3014948380","https://openalex.org/W3047450301","https://openalex.org/W2558432341","https://openalex.org/W1975806245","https://openalex.org/W2345156963","https://openalex.org/W4380551139","https://openalex.org/W1971402940","https://openalex.org/W4317695495","https://openalex.org/W2919479895"],"abstract_inverted_index":{"Ribonucleic":[0],"acid":[1],"(RNA)":[2],"molecules":[3],"are":[4],"essential":[5],"macromolecules":[6],"that":[7,120],"perform":[8],"diverse":[9],"biological":[10],"functions":[11],"in":[12,23,65,185],"living":[13],"beings.":[14],"Precise":[15],"prediction":[16,74,87],"of":[17,62,76,88,190],"RNA":[18,34,44,77,125,158,191],"secondary":[19,45,78,135],"structures":[20,46,79],"is":[21],"instrumental":[22],"deciphering":[24],"their":[25],"complex":[26],"three-dimensional":[27],"architecture":[28],"and":[29,39,51,96,151,153,166],"functionality.":[30],"Traditional":[31],"methodologies":[32],"for":[33],"structure":[35],"prediction,":[36],"including":[37],"energy-based":[38],"learning-based":[40],"approaches,":[41],"often":[42],"depict":[43],"from":[47,108,124,146,157],"a":[48,55,99,109,116,147,182,193],"static":[49],"perspective":[50],"rely":[52],"on":[53,81,163,199],"stringent":[54],"priori":[56],"constraints.":[57],"Inspired":[58],"by":[59,196],"the":[60,86,104,129,187],"success":[61],"diffusion":[63],"models,":[64],"this":[66],"work,":[67],"we":[68],"introduce":[69],"RNADiffFold,":[70],"an":[71,133],"innovative":[72],"generative":[73],"approach":[75],"based":[80],"multinomial":[82],"diffusion.":[83],"We":[84,113],"reconceptualize":[85],"contact":[89,105],"maps":[90,106,144,155],"as":[91],"akin":[92],"to":[93,102,127],"pixel-wise":[94],"segmentation":[95],"accordingly":[97],"train":[98],"denoising":[100],"model":[101,130],"refine":[103],"starting":[107],"noise-infused":[110],"state":[111],"progressively.":[112],"also":[114],"devise":[115],"potent":[117],"conditioning":[118],"mechanism":[119],"harnesses":[121],"features":[122,138],"extracted":[123],"sequences":[126],"steer":[128],"toward":[131],"generating":[132],"accurate":[134],"structure.":[136],"These":[137],"encompass":[139],"one-hot":[140],"encoded":[141],"sequences,":[142],"probabilistic":[143],"generated":[145],"pre-trained":[148],"scoring":[149],"network,":[150],"embeddings":[152],"attention":[154],"derived":[156],"foundation":[159],"model.":[160],"Experimental":[161],"results":[162],"both":[164],"within-":[165],"cross-family":[167],"datasets":[168,200],"demonstrate":[169],"RNADiffFold's":[170],"competitive":[171],"performance":[172,198],"compared":[173],"with":[174],"current":[175],"state-of-the-art":[176],"methods.":[177],"Additionally,":[178],"RNADiffFold":[179],"has":[180],"shown":[181],"notable":[183],"proficiency":[184],"capturing":[186],"dynamic":[188],"aspects":[189],"structures,":[192],"claim":[194],"corroborated":[195],"its":[197],"comprising":[201],"multiple":[202],"conformations.":[203]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":9}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
