{"id":"https://openalex.org/W1502958771","doi":"https://doi.org/10.1002/0471142700.nc1102s28","title":"RNA Secondary Structure Prediction","display_name":"RNA Secondary Structure Prediction","publication_year":2007,"publication_date":"2007-03-01","ids":{"openalex":"https://openalex.org/W1502958771","doi":"https://doi.org/10.1002/0471142700.nc1102s28","mag":"1502958771","pmid":"https://pubmed.ncbi.nlm.nih.gov/18428968","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/5115178"},"language":"en","primary_location":{"id":"doi:10.1002/0471142700.nc1102s28","doi":"https://doi.org/10.1002/0471142700.nc1102s28","is_oa":false,"landing_page_url":"https://doi.org/10.1002/0471142700.nc1102s28","pdf_url":null,"source":{"id":"https://openalex.org/S4210220840","display_name":"Current Protocols in Nucleic Acid Chemistry","issn_l":"1934-9270","issn":["1934-9270","1934-9289"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","ki-jl-1","poland-40"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Current Protocols in Nucleic Acid Chemistry","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5115178","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002272329","display_name":"David H. Mathews","orcid":"https://orcid.org/0000-0002-2907-6557","observed_orcids":["https://orcid.org/0000-0002-2907-6557","https://orcid.org/0000-0002-4695-0269"]},"institutions":[{"id":"https://openalex.org/I5388228","display_name":"University of Rochester","ror":"https://ror.org/022kthw22","country_code":"US","type":"education","lineage":["https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David H. Mathews","raw_affiliation_strings":["University of Rochester  Rochester New York","University of Rochester, Rochester, New York#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Rochester  Rochester New York","institution_ids":["https://openalex.org/I5388228"]},{"raw_affiliation_string":"University of Rochester, Rochester, New York#TAB#","institution_ids":["https://openalex.org/I5388228"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013801926","display_name":"Douglas H. Turner","orcid":"https://orcid.org/0000-0003-3853-8271","observed_orcids":["https://orcid.org/0000-0003-3853-8271"]},"institutions":[{"id":"https://openalex.org/I5388228","display_name":"University of Rochester","ror":"https://ror.org/022kthw22","country_code":"US","type":"education","lineage":["https://openalex.org/I5388228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Douglas H. Turner","raw_affiliation_strings":["University of Rochester  Rochester New York","University of Rochester, Rochester, New York#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Rochester  Rochester New York","institution_ids":["https://openalex.org/I5388228"]},{"raw_affiliation_string":"University of Rochester, Rochester, New York#TAB#","institution_ids":["https://openalex.org/I5388228"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085603729","display_name":"Michael Zuker","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I165799507","display_name":"Rensselaer Polytechnic Institute","ror":"https://ror.org/01rtyzb94","country_code":"US","type":"education","lineage":["https://openalex.org/I165799507"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Zuker","raw_affiliation_strings":["Rensselaer Polytechnic Institute , Troy, New York"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Rensselaer Polytechnic Institute , Troy, New York","institution_ids":["https://openalex.org/I165799507"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":5050,"currency":"USD","value_usd":5050},"apc_paid":null,"fwci":3.3303,"has_fulltext":false,"cited_by_count":156,"citation_normalized_percentile":{"value":0.9321348,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"28","issue":"1","first_page":"11.2.1","last_page":"11.2.19"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9970999956130981,"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":0.9970999956130981,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.0006000000284984708,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.0005000000237487257,"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-secondary-structure-prediction","display_name":"RNA secondary structure prediction","score":0.9750000238418579},{"id":"https://openalex.org/keywords/free-energy-minimization","display_name":"free energy minimization","score":0.8569999933242798},{"id":"https://openalex.org/keywords/mfold","display_name":"Mfold","score":0.8410000205039978},{"id":"https://openalex.org/keywords/minimum-free-energy-structure","display_name":"minimum free energy structure","score":0.9649999737739563}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6865913271903992},{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.6422030925750732},{"id":"https://openalex.org/C112968700","wikidata":"https://www.wikidata.org/wiki/Q11368","display_name":"Unix","level":3,"score":0.6054664850234985},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5302184224128723},{"id":"https://openalex.org/C85468374","wikidata":"https://www.wikidata.org/wiki/Q6589957","display_name":"Nucleic acid secondary structure","level":4,"score":0.5295140743255615},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.5221529006958008},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5065063238143921},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.49715402722358704},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4486428201198578},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.428803950548172},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.22313514351844788},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21410059928894043},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.14768993854522705},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1461586356163025},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08954712748527527},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08441448211669922},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1002/0471142700.nc1102s28","doi":"https://doi.org/10.1002/0471142700.nc1102s28","is_oa":false,"landing_page_url":"https://doi.org/10.1002/0471142700.nc1102s28","pdf_url":null,"source":{"id":"https://openalex.org/S4210220840","display_name":"Current Protocols in Nucleic Acid Chemistry","issn_l":"1934-9270","issn":["1934-9270","1934-9289"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","ki-jl-1","poland-40"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Current Protocols in Nucleic Acid Chemistry","raw_type":"journal-article"},{"id":"pmid:18428968","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18428968","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,"listed_in":[],"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":"Current protocols in nucleic acid chemistry","raw_type":"Journal Article"},{"id":"pmid:27911493","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27911493","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,"listed_in":[],"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":"Current protocols in nucleic acid chemistry","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:5115178","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5115178","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Curr Protoc Nucleic Acid Chem","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:5115178","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5115178","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Curr Protoc Nucleic Acid Chem","raw_type":"Text"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G6840855294","display_name":"Folding RNA: from Aids to the Human Genome","funder_award_id":"R01GM022939","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7910166688","display_name":"Supporting RNA structure: Software for RNA Analysis","funder_award_id":"R01GM076485","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1519185585","https://openalex.org/W1861164398","https://openalex.org/W1892009258","https://openalex.org/W1935059966","https://openalex.org/W1967538502","https://openalex.org/W1975806245","https://openalex.org/W2004945910","https://openalex.org/W2009215595","https://openalex.org/W2009818318","https://openalex.org/W2012574617","https://openalex.org/W2017313617","https://openalex.org/W2017965868","https://openalex.org/W2044410490","https://openalex.org/W2044595289","https://openalex.org/W2045452812","https://openalex.org/W2046853444","https://openalex.org/W2051713039","https://openalex.org/W2077745293","https://openalex.org/W2096838621","https://openalex.org/W2102107103","https://openalex.org/W2102225325","https://openalex.org/W2103250001","https://openalex.org/W2104141342","https://openalex.org/W2105950741","https://openalex.org/W2123241418","https://openalex.org/W2136361016","https://openalex.org/W2138329420","https://openalex.org/W2147459598","https://openalex.org/W2165639228","https://openalex.org/W2166989126","https://openalex.org/W2167673850","https://openalex.org/W2170342148","https://openalex.org/W2171746475","https://openalex.org/W4251866352"],"related_works":["https://openalex.org/W1685935480","https://openalex.org/W2523592638","https://openalex.org/W2396713240","https://openalex.org/W2039746015","https://openalex.org/W1979988863","https://openalex.org/W1978187259","https://openalex.org/W2054697783","https://openalex.org/W1559047570","https://openalex.org/W2783208058","https://openalex.org/W1480157726"],"abstract_inverted_index":{"Details":[0],"for":[1],"predicting":[2],"secondary":[3],"structure":[4,36],"of":[5,18,40,50],"RNA":[6,58],"sequences":[7],"using":[8],"free":[9,34,45],"energy":[10,35],"minimization":[11],"are":[12,47],"given.":[13],"Protocols":[14],"present":[15],"the":[16,19,26],"use":[17],"RNAstructure":[20],"computer":[21],"program":[22],"(for":[23,29],"PCs)":[24],"and":[25,37],"mfold":[27],"server":[28],"Unix":[30],"platforms).":[31],"The":[32],"minimum":[33],"a":[38,56],"set":[39],"suboptimal":[41],"structures":[42],"with":[43],"similar":[44],"energies":[46],"predicted.":[48],"Prediction":[49],"high-affinity":[51],"oligonucleotide":[52],"binding":[53],"sites":[54],"to":[55],"structured":[57],"target":[59],"is":[60],"also":[61],"presented.":[62]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":14},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":12},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":13}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}
