{"id":"https://openalex.org/W4306831550","doi":"https://doi.org/10.1371/journal.pcbi.1010501","title":"Ab initio predictions for 3D structure and stability of single- and double-stranded DNAs in ion solutions","display_name":"Ab initio predictions for 3D structure and stability of single- and double-stranded DNAs in ion solutions","publication_year":2022,"publication_date":"2022-10-19","ids":{"openalex":"https://openalex.org/W4306831550","doi":"https://doi.org/10.1371/journal.pcbi.1010501","pmid":"https://pubmed.ncbi.nlm.nih.gov/36260618"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1010501","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010501","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010501&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010501&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053522265","display_name":"Zi-Chun Mu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210119942","display_name":"Wuhan Textile University","ror":"https://ror.org/02jgsf398","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210119942"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zi-Chun Mu","raw_affiliation_strings":["Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","School of Computer Science and Artificial Intelligence, Wuhan Textile University, Wuhan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]},{"raw_affiliation_string":"School of Computer Science and Artificial Intelligence, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043645655","display_name":"Ya-Lan Tan","orcid":null},"institutions":[{"id":"https://openalex.org/I4210119942","display_name":"Wuhan Textile University","ror":"https://ror.org/02jgsf398","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210119942"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ya-Lan Tan","raw_affiliation_strings":["Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036104736","display_name":"Bengong Zhang","orcid":"https://orcid.org/0000-0002-2766-6502"},"institutions":[{"id":"https://openalex.org/I4210119942","display_name":"Wuhan Textile University","ror":"https://ror.org/02jgsf398","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210119942"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ben-Gong Zhang","raw_affiliation_strings":["Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100454111","display_name":"Jie Liu","orcid":"https://orcid.org/0000-0002-4828-3244"},"institutions":[{"id":"https://openalex.org/I4210119942","display_name":"Wuhan Textile University","ror":"https://ror.org/02jgsf398","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210119942"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jie Liu","raw_affiliation_strings":["Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054012707","display_name":"Ya-Zhou Shi","orcid":"https://orcid.org/0000-0003-2579-3134"},"institutions":[{"id":"https://openalex.org/I4210119942","display_name":"Wuhan Textile University","ror":"https://ror.org/02jgsf398","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210119942"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Ya-Zhou Shi","raw_affiliation_strings":["Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China"],"raw_orcid":"https://orcid.org/0000-0003-2579-3134","affiliations":[{"raw_affiliation_string":"Research Center of Nonlinear Science, School of Mathematical & Physical Sciences, Wuhan Textile University, Wuhan, China","institution_ids":["https://openalex.org/I4210119942"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5054012707"],"corresponding_institution_ids":["https://openalex.org/I4210119942"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.0416,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.75357064,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"18","issue":"10","first_page":"e1010501","last_page":"e1010501"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9998999834060669,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9998999834060669,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9995999932289124,"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/T10725","display_name":"RNA Interference and Gene Delivery","score":0.9986000061035156,"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/pseudoknot","display_name":"Pseudoknot","score":0.744749903678894},{"id":"https://openalex.org/keywords/stacking","display_name":"Stacking","score":0.5926495790481567},{"id":"https://openalex.org/keywords/stability","display_name":"Stability (learning theory)","score":0.5168721675872803},{"id":"https://openalex.org/keywords/ab-initio","display_name":"Ab initio","score":0.46791699528694153},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.4459826350212097},{"id":"https://openalex.org/keywords/simulated-annealing","display_name":"Simulated annealing","score":0.4339447021484375},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.421888142824173},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.4209054708480835},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.4078662693500519},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.39352068305015564},{"id":"https://openalex.org/keywords/thermodynamics","display_name":"Thermodynamics","score":0.3926742970943451},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.38524681329727173},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.3441958725452423},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3434021770954132},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3222014307975769},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.21380776166915894},{"id":"https://openalex.org/keywords/base-sequence","display_name":"Base sequence","score":0.18345999717712402},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.1831004023551941}],"concepts":[{"id":"https://openalex.org/C105130999","wikidata":"https://www.wikidata.org/wiki/Q414976","display_name":"Pseudoknot","level":4,"score":0.744749903678894},{"id":"https://openalex.org/C33347731","wikidata":"https://www.wikidata.org/wiki/Q285210","display_name":"Stacking","level":2,"score":0.5926495790481567},{"id":"https://openalex.org/C112972136","wikidata":"https://www.wikidata.org/wiki/Q7595718","display_name":"Stability (learning theory)","level":2,"score":0.5168721675872803},{"id":"https://openalex.org/C2781442258","wikidata":"https://www.wikidata.org/wiki/Q46310","display_name":"Ab initio","level":2,"score":0.46791699528694153},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.4459826350212097},{"id":"https://openalex.org/C126980161","wikidata":"https://www.wikidata.org/wiki/Q863783","display_name":"Simulated annealing","level":2,"score":0.4339447021484375},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.421888142824173},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.4209054708480835},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.4078662693500519},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.39352068305015564},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.3926742970943451},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.38524681329727173},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.3441958725452423},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3434021770954132},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3222014307975769},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.21380776166915894},{"id":"https://openalex.org/C3017666073","wikidata":"https://www.wikidata.org/wiki/Q1764062","display_name":"Base sequence","level":3,"score":0.18345999717712402},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.1831004023551941},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"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/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007477","descriptor_name":"Ions","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":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","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":false},{"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}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1010501","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010501","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010501&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:36260618","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36260618","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:099acec9f29f4c6995e4ef02fa9c8fb5","is_oa":true,"landing_page_url":"https://doaj.org/article/099acec9f29f4c6995e4ef02fa9c8fb5","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 18, Iss 10, p e1010501 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9621594","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9621594","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,"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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:research-repository.griffith.edu.au:10072/430559","is_oa":true,"landing_page_url":"https://hdl.handle.net/10072/430559","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1010501","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010501","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010501&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3834958225","display_name":null,"funder_award_id":"11605125","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5778567545","display_name":null,"funder_award_id":"11971367","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320324116","display_name":"Wuhan University","ror":"https://ror.org/033vjfk17"},{"id":"https://openalex.org/F4320331248","display_name":"Shenzhen Bay Laboratory","ror":"https://ror.org/00sdcjz77"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4306831550.pdf","grobid_xml":"https://content.openalex.org/works/W4306831550.grobid-xml"},"referenced_works_count":112,"referenced_works":["https://openalex.org/W56157883","https://openalex.org/W1806547840","https://openalex.org/W1901705328","https://openalex.org/W1969865760","https://openalex.org/W1970663985","https://openalex.org/W1970855422","https://openalex.org/W1976308393","https://openalex.org/W1976961172","https://openalex.org/W1986302333","https://openalex.org/W1986579856","https://openalex.org/W1993085892","https://openalex.org/W1994852979","https://openalex.org/W1995658481","https://openalex.org/W2006065113","https://openalex.org/W2011510734","https://openalex.org/W2021239285","https://openalex.org/W2021838563","https://openalex.org/W2023885152","https://openalex.org/W2024060531","https://openalex.org/W2025258778","https://openalex.org/W2026509748","https://openalex.org/W2027177938","https://openalex.org/W2045533286","https://openalex.org/W2050103377","https://openalex.org/W2053150979","https://openalex.org/W2065996552","https://openalex.org/W2074253966","https://openalex.org/W2075886300","https://openalex.org/W2077129860","https://openalex.org/W2079928301","https://openalex.org/W2080931090","https://openalex.org/W2081315067","https://openalex.org/W2102834112","https://openalex.org/W2103653834","https://openalex.org/W2107044164","https://openalex.org/W2112333437","https://openalex.org/W2117191629","https://openalex.org/W2122401542","https://openalex.org/W2124577344","https://openalex.org/W2131404542","https://openalex.org/W2133742529","https://openalex.org/W2141157874","https://openalex.org/W2149681483","https://openalex.org/W2162193698","https://openalex.org/W2169109192","https://openalex.org/W2169186845","https://openalex.org/W2169371925","https://openalex.org/W2172601829","https://openalex.org/W2202710059","https://openalex.org/W2212215912","https://openalex.org/W2306820405","https://openalex.org/W2328079081","https://openalex.org/W2330073554","https://openalex.org/W2335734618","https://openalex.org/W2401568999","https://openalex.org/W2472147475","https://openalex.org/W2504005032","https://openalex.org/W2600989122","https://openalex.org/W2606133359","https://openalex.org/W2617047179","https://openalex.org/W2769388834","https://openalex.org/W2777996244","https://openalex.org/W2783971516","https://openalex.org/W2788055013","https://openalex.org/W2807492508","https://openalex.org/W2884987112","https://openalex.org/W2888879499","https://openalex.org/W2902320679","https://openalex.org/W2946725940","https://openalex.org/W2963391248","https://openalex.org/W2964202102","https://openalex.org/W2964711541","https://openalex.org/W2979768127","https://openalex.org/W2981900991","https://openalex.org/W2992752060","https://openalex.org/W3001088794","https://openalex.org/W3005112368","https://openalex.org/W3017349264","https://openalex.org/W3023058521","https://openalex.org/W3041641129","https://openalex.org/W3092196702","https://openalex.org/W3098077979","https://openalex.org/W3098855797","https://openalex.org/W3099479137","https://openalex.org/W3103586898","https://openalex.org/W3105054720","https://openalex.org/W3105231378","https://openalex.org/W3106148129","https://openalex.org/W3119156231","https://openalex.org/W3126007358","https://openalex.org/W3127634170","https://openalex.org/W3139211464","https://openalex.org/W3148042916","https://openalex.org/W3149116662","https://openalex.org/W3155522150","https://openalex.org/W3158678351","https://openalex.org/W3160175161","https://openalex.org/W3162291125","https://openalex.org/W3169781269","https://openalex.org/W3172040556","https://openalex.org/W3174750554","https://openalex.org/W3181567073","https://openalex.org/W3202014670","https://openalex.org/W3206192433","https://openalex.org/W3213615006","https://openalex.org/W4205484470","https://openalex.org/W4205718783","https://openalex.org/W4211087439","https://openalex.org/W4220842939","https://openalex.org/W4226291716","https://openalex.org/W4282919460","https://openalex.org/W4296006151"],"related_works":["https://openalex.org/W2057901482","https://openalex.org/W2018280025","https://openalex.org/W1998399688","https://openalex.org/W2022565929","https://openalex.org/W2054306371","https://openalex.org/W2088188302","https://openalex.org/W2017993626","https://openalex.org/W2981287558","https://openalex.org/W2007550449","https://openalex.org/W2523675295"],"abstract_inverted_index":{"The":[0],"three-dimensional":[1],"(3D)":[2],"structure":[3,168],"and":[4,15,46,51,64,73,86,115,133],"stability":[5,47,169],"of":[6,19,104,141,161,170],"DNA":[7,32],"are":[8],"essential":[9],"to":[10,42],"understand/control":[11],"their":[12,97],"biological":[13],"functions":[14],"aid":[16],"the":[17,35,54,69,78,91,107,117,138,146,154,159,167],"development":[18],"novel":[20],"materials.":[21],"In":[22],"this":[23],"work,":[24],"we":[25],"present":[26,79,118],"a":[27,58],"coarse-grained":[28],"(CG)":[29],"model":[30,38,80,119,155],"for":[31,48,127],"based":[33],"on":[34,124,166],"RNA":[36],"CG":[37,65],"proposed":[39],"by":[40],"us,":[41],"predict":[43],"3D":[44],"structures":[45,94],"both":[49],"dsDNA":[50],"ssDNA":[52],"from":[53,96,106,145],"sequence.":[55],"Combined":[56],"with":[57,99,112],"Monte":[59],"Carlo":[60],"simulated":[61],"annealing":[62],"algorithm":[63],"force":[66],"fields":[67],"involving":[68],"sequence-dependent":[70],"base-pairing/stacking":[71],"interactions":[72],"an":[74,100],"implicit":[75],"electrostatic":[76],"potential,":[77],"successfully":[81],"folds":[82],"20":[83,87],"dsDNAs":[84,129],"(\u226452nt)":[85],"ssDNAs":[88,135],"(\u226474nt)":[89],"into":[90],"corresponding":[92,147],"native-like":[93],"just":[95],"sequences,":[98,116],"overall":[101],"mean":[102,139],"RMSD":[103],"3.4\u00c5":[105],"experimental":[108,148],"structures.":[109],"For":[110],"DNAs":[111],"various":[113],"lengths":[114],"can":[120],"make":[121],"reliable":[122],"predictions":[123],"stability,":[125],"e.g.,":[126],"27":[128],"with/without":[130],"bulge/internal":[131],"loops":[132],"24":[134],"including":[136],"pseudoknot,":[137],"deviation":[140],"predicted":[142],"melting":[143],"temperatures":[144],"data":[149],"is":[150],"only":[151],"~2.0\u00b0C.":[152],"Furthermore,":[153],"also":[156],"quantificationally":[157],"predicts":[158],"effects":[160],"monovalent":[162],"or":[163],"divalent":[164],"ions":[165],"ssDNAs/dsDNAs.":[171]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
