{"id":"https://openalex.org/W2175411040","doi":"https://doi.org/10.1093/bioinformatics/btv682","title":"AccessFold: predicting RNA\u2013RNA interactions with consideration for competing self-structure","display_name":"AccessFold: predicting RNA\u2013RNA interactions with consideration for competing self-structure","publication_year":2015,"publication_date":"2015-11-20","ids":{"openalex":"https://openalex.org/W2175411040","doi":"https://doi.org/10.1093/bioinformatics/btv682","mag":"2175411040","pmid":"https://pubmed.ncbi.nlm.nih.gov/26589271"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv682","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv682","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/7/1033/19568306/btv682.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/7/1033/19568306/btv682.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014202080","display_name":"Laura DiChiacchio","orcid":"https://orcid.org/0000-0002-0854-7241"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Laura DiChiacchio","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics and Center for RNA Biology and"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics and Center for RNA Biology and","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058356883","display_name":"Michael F. Sloma","orcid":"https://orcid.org/0000-0001-9730-6038"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Michael F. Sloma","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics and Center for RNA Biology and"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics and Center for RNA Biology and","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002272329","display_name":"David H. Mathews","orcid":"https://orcid.org/0000-0002-2907-6557"},"institutions":[{"id":"https://openalex.org/I28792581","display_name":"University of Rochester Medical Center","ror":"https://ror.org/00trqv719","country_code":"US","type":"funder","lineage":["https://openalex.org/I28792581","https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"David H. Mathews","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics and Center for RNA Biology and","2 Department of Biostatistics and Computational Biology, University of Rochester Medical Center, Rochester, NY 14642, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics and Center for RNA Biology and","institution_ids":[]},{"raw_affiliation_string":"2 Department of Biostatistics and Computational Biology, University of Rochester Medical Center, Rochester, NY 14642, USA","institution_ids":["https://openalex.org/I28792581"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5002272329"],"corresponding_institution_ids":["https://openalex.org/I28792581"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.8113,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":{"value":0.85279922,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"32","issue":"7","first_page":"1033","last_page":"1039"},"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":0.9991999864578247,"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/T10604","display_name":"RNA Research and Splicing","score":0.9990000128746033,"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/rna","display_name":"RNA","score":0.7334729433059692},{"id":"https://openalex.org/keywords/nucleic-acid-structure","display_name":"Nucleic acid structure","score":0.6261417865753174},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45171597599983215},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4254504442214966},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21930602192878723},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19171929359436035},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07046940922737122}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.7334729433059692},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.6261417865753174},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45171597599983215},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4254504442214966},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21930602192878723},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19171929359436035},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07046940922737122}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","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":"D012313","descriptor_name":"RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020029","descriptor_name":"Base Pairing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv682","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv682","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/7/1033/19568306/btv682.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26589271","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26589271","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/7/1033","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/7/1033","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:4907385","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4907385","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv682","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv682","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/7/1033/19568306/btv682.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Affordable and clean energy","score":0.8999999761581421,"id":"https://metadata.un.org/sdg/7"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2175411040.pdf","grobid_xml":"https://content.openalex.org/works/W2175411040.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W166206240","https://openalex.org/W1480157726","https://openalex.org/W1481189688","https://openalex.org/W1965077482","https://openalex.org/W1975390562","https://openalex.org/W1975806245","https://openalex.org/W1978288629","https://openalex.org/W1980410097","https://openalex.org/W1983815263","https://openalex.org/W1984675364","https://openalex.org/W1988512789","https://openalex.org/W2000191287","https://openalex.org/W2001876475","https://openalex.org/W2004945910","https://openalex.org/W2009215595","https://openalex.org/W2009818318","https://openalex.org/W2027440694","https://openalex.org/W2039357236","https://openalex.org/W2045721706","https://openalex.org/W2047944486","https://openalex.org/W2051713039","https://openalex.org/W2068205681","https://openalex.org/W2079583942","https://openalex.org/W2082946618","https://openalex.org/W2090030959","https://openalex.org/W2098571862","https://openalex.org/W2113816707","https://openalex.org/W2119340328","https://openalex.org/W2119894284","https://openalex.org/W2120932946","https://openalex.org/W2136645624","https://openalex.org/W2160913143","https://openalex.org/W2160945322","https://openalex.org/W2161159766","https://openalex.org/W2161688176","https://openalex.org/W2164700062","https://openalex.org/W2165639228","https://openalex.org/W2165824239","https://openalex.org/W2166745309","https://openalex.org/W2170157200","https://openalex.org/W2803927613","https://openalex.org/W3145676374","https://openalex.org/W4254867250","https://openalex.org/W6684319383"],"related_works":["https://openalex.org/W1472344963","https://openalex.org/W3093937951","https://openalex.org/W2554722417","https://openalex.org/W2470187006","https://openalex.org/W1640318440","https://openalex.org/W2581348958","https://openalex.org/W2264054990","https://openalex.org/W2581888268","https://openalex.org/W2954917112","https://openalex.org/W2902683473"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-01T17:29:45.350535","created_date":"2025-10-10T00:00:00"}
