{"id":"https://openalex.org/W2790927871","doi":"https://doi.org/10.1142/s0218001418510059","title":"Predicting Model and Algorithm in RNA Folding Structure Including Pseudoknots","display_name":"Predicting Model and Algorithm in RNA Folding Structure Including Pseudoknots","publication_year":2018,"publication_date":"2018-03-12","ids":{"openalex":"https://openalex.org/W2790927871","doi":"https://doi.org/10.1142/s0218001418510059","mag":"2790927871"},"language":"en","primary_location":{"id":"doi:10.1142/s0218001418510059","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0218001418510059","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0218001418510059","source":{"id":"https://openalex.org/S41486457","display_name":"International Journal of Pattern Recognition and Artificial Intelligence","issn_l":"0218-0014","issn":["0218-0014","1793-6381"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319815","host_organization_name":"World Scientific","host_organization_lineage":["https://openalex.org/P4310319815"],"host_organization_lineage_names":["World Scientific"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Pattern Recognition and Artificial Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0218001418510059","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102002957","display_name":"Zhendong Liu","orcid":"https://orcid.org/0000-0002-4131-313X"},"institutions":[{"id":"https://openalex.org/I44445938","display_name":"Shandong Jianzhu University","ror":"https://ror.org/01gbfax37","country_code":"CN","type":"education","lineage":["https://openalex.org/I44445938"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zhendong Liu","raw_affiliation_strings":["School of Computer Science and Technology, Shandong Jianzhu University, Jinan 250101, P. R. China"],"raw_orcid":"https://orcid.org/0000-0002-4131-313X","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong Jianzhu University, Jinan 250101, P. R. China","institution_ids":["https://openalex.org/I44445938"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101769221","display_name":"Daming Zhu","orcid":"https://orcid.org/0000-0001-9395-7247"},"institutions":[{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Daming Zhu","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University, Jinan 250101, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University, Jinan 250101, P. R. China","institution_ids":["https://openalex.org/I154099455"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080722708","display_name":"Qionghai Dai","orcid":"https://orcid.org/0000-0001-7043-3061"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qionghai Dai","raw_affiliation_strings":["Department of Automation, Tsinghua University, Beijing 100084, P. R. China","Department of Automation, Tsinghua University Beijing, 100084, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Automation, Tsinghua University, Beijing 100084, P. R. China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Automation, Tsinghua University Beijing, 100084, P. R. China","institution_ids":["https://openalex.org/I99065089"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5102002957"],"corresponding_institution_ids":["https://openalex.org/I44445938"],"apc_list":null,"apc_paid":null,"fwci":0.1855,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.521559,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"32","issue":"10","first_page":"1851005","last_page":"1851005"},"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":0.9825000166893005,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.978600025177002,"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":0.5991407036781311},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5700611472129822},{"id":"https://openalex.org/keywords/folding","display_name":"Folding (DSP implementation)","score":0.5416354537010193},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.4160747230052948},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.36951324343681335},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16581061482429504},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10394200682640076},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.08493468165397644},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.06182265281677246}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5991407036781311},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5700611472129822},{"id":"https://openalex.org/C2776545253","wikidata":"https://www.wikidata.org/wiki/Q5464292","display_name":"Folding (DSP implementation)","level":2,"score":0.5416354537010193},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4160747230052948},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.36951324343681335},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16581061482429504},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10394200682640076},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.08493468165397644},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.06182265281677246},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1142/s0218001418510059","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0218001418510059","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0218001418510059","source":{"id":"https://openalex.org/S41486457","display_name":"International Journal of Pattern Recognition and Artificial Intelligence","issn_l":"0218-0014","issn":["0218-0014","1793-6381"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319815","host_organization_name":"World Scientific","host_organization_lineage":["https://openalex.org/P4310319815"],"host_organization_lineage_names":["World Scientific"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Pattern Recognition and Artificial Intelligence","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1142/s0218001418510059","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0218001418510059","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0218001418510059","source":{"id":"https://openalex.org/S41486457","display_name":"International Journal of Pattern Recognition and Artificial Intelligence","issn_l":"0218-0014","issn":["0218-0014","1793-6381"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319815","host_organization_name":"World Scientific","host_organization_lineage":["https://openalex.org/P4310319815"],"host_organization_lineage_names":["World Scientific"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Pattern Recognition and Artificial Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.8700000047683716}],"awards":[{"id":"https://openalex.org/G1925705945","display_name":null,"funder_award_id":"61272431","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6359646437","display_name":null,"funder_award_id":"61672328","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320323226","display_name":"Ministry of Housing and Urban-Rural Development","ror":"https://ror.org/015x8jm48"},{"id":"https://openalex.org/F4320324777","display_name":"Shandong Jianzhu University","ror":"https://ror.org/01gbfax37"},{"id":"https://openalex.org/F4320334012","display_name":"Science and Technology Development Plan of Shandong Province","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2790927871.pdf","grobid_xml":"https://content.openalex.org/works/W2790927871.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1562367207","https://openalex.org/W1563816212","https://openalex.org/W1599612900","https://openalex.org/W1993968482","https://openalex.org/W1995403172","https://openalex.org/W2007231791","https://openalex.org/W2007644443","https://openalex.org/W2011078969","https://openalex.org/W2015762216","https://openalex.org/W2017313617","https://openalex.org/W2027097152","https://openalex.org/W2028512329","https://openalex.org/W2054931730","https://openalex.org/W2064714768","https://openalex.org/W2067620072","https://openalex.org/W2102046276","https://openalex.org/W2106293441","https://openalex.org/W2108699324","https://openalex.org/W2109297587","https://openalex.org/W2119863995","https://openalex.org/W2123241418","https://openalex.org/W2124162379","https://openalex.org/W2138059105","https://openalex.org/W2143407915","https://openalex.org/W2146721220","https://openalex.org/W2146922921","https://openalex.org/W2148599336","https://openalex.org/W2168389439","https://openalex.org/W2181035467","https://openalex.org/W2414122243","https://openalex.org/W2419655189","https://openalex.org/W2468050431","https://openalex.org/W2568184819","https://openalex.org/W2587824609"],"related_works":["https://openalex.org/W2786729541","https://openalex.org/W2076756368","https://openalex.org/W2007231791","https://openalex.org/W2904049970","https://openalex.org/W2724446656","https://openalex.org/W2274547936","https://openalex.org/W2062772609","https://openalex.org/W2247236880","https://openalex.org/W3148820814","https://openalex.org/W1511408336","https://openalex.org/W3140014063","https://openalex.org/W226438193","https://openalex.org/W1650086080","https://openalex.org/W2326087342","https://openalex.org/W2782989009","https://openalex.org/W128568968","https://openalex.org/W2093789041","https://openalex.org/W2295714737","https://openalex.org/W1583489351","https://openalex.org/W1244043456"],"abstract_inverted_index":{"The":[0,69],"prediction":[1],"of":[2,121,128,140,154],"RNA":[3,36,144],"structure":[4,37],"with":[5,38],"pseudoknots":[6,141],"is":[7,64],"a":[8,106],"nondeterministic":[9],"polynomial-time":[10],"hard":[11],"(NP-hard)":[12],"problem;":[13],"according":[14],"to":[15],"minimum":[16],"free":[17],"energy":[18],"models":[19],"and":[20,40,48,58,67,75,90,96,123,147],"computational":[21],"methods,":[22],"we":[23,124],"investigate":[24],"the":[25,41,53,62,72,97,126,129],"RNA-pseudoknotted":[26,133],"structure.":[27,134],"Our":[28],"paper":[29],"presents":[30],"an":[31],"efficient":[32],"algorithm":[33,42,63,89,98],"for":[34],"predicting":[35,70],"pseudoknots,":[39],"takes":[43],"O([Formula:":[44,49],"see":[45,50,108,111],"text])":[46,51,112],"time":[47,73,114],"space,":[52],"experimental":[54],"tests":[55],"in":[56,117,132,143],"Rfam10.1":[57],"PseudoBase":[59],"indicate":[60],"that":[61],"more":[65],"effective":[66],"precise.":[68],"accuracy,":[71],"complexity":[74,77],"space":[76],"outperform":[78],"existing":[79],"algorithms,":[80],"such":[81],"as":[82],"Maximum":[83],"Weight":[84],"Matching":[85],"(MWM)":[86],"algorithm,":[87,95],"PKNOTS":[88],"Inner":[91],"Limiting":[92],"Layer":[93],"(ILM)":[94],"can":[99],"predict":[100],"arbitrary":[101],"pseudoknots.":[102,155],"And":[103],"there":[104],"exists":[105],"[Formula:":[107],"text]":[109],"([Formula:":[110],"polynomial":[113],"approximation":[115,130],"scheme":[116,131],"searching":[118],"maximum":[119],"number":[120],"stackings,":[122],"give":[125],"proof":[127],"We":[135],"have":[136],"improved":[137],"several":[138],"types":[139,153],"considered":[142],"folding":[145],"structure,":[146],"analyze":[148],"their":[149],"possible":[150],"transitions":[151],"between":[152]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
