{"id":"https://openalex.org/W1969011600","doi":"https://doi.org/10.1145/2147805.2147877","title":"Algorithms for pseudoknot classification","display_name":"Algorithms for pseudoknot classification","publication_year":2011,"publication_date":"2011-08-01","ids":{"openalex":"https://openalex.org/W1969011600","doi":"https://doi.org/10.1145/2147805.2147877","mag":"1969011600"},"language":"en","primary_location":{"id":"doi:10.1145/2147805.2147877","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147877","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091416583","display_name":"Thomas K. F. Wong","orcid":"https://orcid.org/0000-0002-0580-6324"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Thomas K. F. Wong","raw_affiliation_strings":["The University of Hong Kong, Hong Kong","[The University of Hong Kong, Hong Kong}]"],"affiliations":[{"raw_affiliation_string":"The University of Hong Kong, Hong Kong","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"[The University of Hong Kong, Hong Kong}]","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071837258","display_name":"Huiting Yu","orcid":"https://orcid.org/0000-0002-8979-5238"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Hui-Ting Yu","raw_affiliation_strings":["The University of Hong Kong, Hong Kong","[The University of Hong Kong, Hong Kong}]"],"affiliations":[{"raw_affiliation_string":"The University of Hong Kong, Hong Kong","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"[The University of Hong Kong, Hong Kong}]","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041159626","display_name":"Bay-Yuan Hsu","orcid":"https://orcid.org/0000-0001-8080-3951"},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Bay-Yuan Hsu","raw_affiliation_strings":["National Tsing Hua University, Taiwan"],"affiliations":[{"raw_affiliation_string":"National Tsing Hua University, Taiwan","institution_ids":["https://openalex.org/I25846049"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077116003","display_name":"Tak\u2010Wah Lam","orcid":"https://orcid.org/0000-0003-4676-8587"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Tak-Wah Lam","raw_affiliation_strings":["The University of Hong Kong, Hong Kong","[The University of Hong Kong, Hong Kong}]"],"affiliations":[{"raw_affiliation_string":"The University of Hong Kong, Hong Kong","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"[The University of Hong Kong, Hong Kong}]","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013112058","display_name":"Wing-Kai Hon","orcid":"https://orcid.org/0000-0002-0570-2904"},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Wing-Kai Hon","raw_affiliation_strings":["National Tsing Hua University, Taiwan"],"affiliations":[{"raw_affiliation_string":"National Tsing Hua University, Taiwan","institution_ids":["https://openalex.org/I25846049"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110500992","display_name":"Siu\u2010Ming Yiu","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Siu-Ming Yiu","raw_affiliation_strings":["The University of Hong Kong, Hong Kong","[The University of Hong Kong, Hong Kong}]"],"affiliations":[{"raw_affiliation_string":"The University of Hong Kong, Hong Kong","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"[The University of Hong Kong, Hong Kong}]","institution_ids":["https://openalex.org/I889458895"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5091416583"],"corresponding_institution_ids":["https://openalex.org/I889458895"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.05562997,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"484","last_page":"486"},"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":0.9983999729156494,"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":0.9110895395278931},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7084294557571411},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5692386627197266},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5447677969932556},{"id":"https://openalex.org/keywords/statistical-classification","display_name":"Statistical classification","score":0.4666087031364441},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4498825669288635},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.4470844864845276},{"id":"https://openalex.org/keywords/structural-bioinformatics","display_name":"Structural bioinformatics","score":0.4171154201030731},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.36292707920074463},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.32024866342544556},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.15135639905929565},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1261475384235382},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.12406334280967712}],"concepts":[{"id":"https://openalex.org/C105130999","wikidata":"https://www.wikidata.org/wiki/Q414976","display_name":"Pseudoknot","level":4,"score":0.9110895395278931},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7084294557571411},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5692386627197266},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5447677969932556},{"id":"https://openalex.org/C110083411","wikidata":"https://www.wikidata.org/wiki/Q1744628","display_name":"Statistical classification","level":2,"score":0.4666087031364441},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4498825669288635},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.4470844864845276},{"id":"https://openalex.org/C69131567","wikidata":"https://www.wikidata.org/wiki/Q2068215","display_name":"Structural bioinformatics","level":3,"score":0.4171154201030731},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.36292707920074463},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32024866342544556},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.15135639905929565},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1261475384235382},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.12406334280967712},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"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},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2147805.2147877","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147877","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W1542426682","https://openalex.org/W1605366962","https://openalex.org/W1676133928","https://openalex.org/W1881326155","https://openalex.org/W1950410402","https://openalex.org/W2007644443","https://openalex.org/W2013195357","https://openalex.org/W2019898946","https://openalex.org/W2028574527","https://openalex.org/W2034762276","https://openalex.org/W2086509077","https://openalex.org/W2104141342","https://openalex.org/W2109297587","https://openalex.org/W2111332566","https://openalex.org/W2120523244","https://openalex.org/W2123241418","https://openalex.org/W2144603545","https://openalex.org/W2155944730","https://openalex.org/W2158381555","https://openalex.org/W2169751581","https://openalex.org/W2568184819"],"related_works":["https://openalex.org/W3213683101","https://openalex.org/W3035095237","https://openalex.org/W3186233728","https://openalex.org/W4200459988","https://openalex.org/W4361733776","https://openalex.org/W4281776617","https://openalex.org/W3020897463","https://openalex.org/W4319005243","https://openalex.org/W4398756457","https://openalex.org/W2105518499"],"abstract_inverted_index":{"The":[0,120],"structures":[1,17,29,46],"of":[2,24,79],"non-coding":[3],"RNAs":[4],"are":[5,40,127],"found":[6,128],"to":[7,36,54,58,82,116,129],"be":[8,130],"critical":[9],"in":[10,22,93,124],"many":[11],"biological":[12],"functions.":[13,26],"In":[14,68],"particular,":[15],"pseudoknotted":[16,28,38],"play":[18],"an":[19],"important":[20],"role":[21],"some":[23],"these":[25],"Different":[27],"may":[30],"have":[31,55],"different":[32,66],"functionalities.":[33],"Algorithms":[34],"developed":[35],"handle":[37],"ncRNAs":[39],"usually":[41],"designed":[42],"for":[43],"specific":[44],"pseudoknot":[45],"(e.g.":[47],"structural":[48,113],"alignment":[49,114],"algorithms).":[50],"It":[51],"is":[52],"desirable":[53],"a":[56,60,77],"tool":[57,96],"classify":[59,102],"given":[61],"RNA":[62],"secondary":[63],"structure":[64,105],"into":[65,106],"types.":[67],"this":[69,73],"paper,":[70],"we":[71],"solve":[72],"problem":[74],"by":[75],"providing":[76],"set":[78],"efficient":[80],"algorithms":[81,89,122],"perform":[83,111],"the":[84,88,94,103,107,112,117,125],"classification.":[85],"We":[86],"implemented":[87],"and":[90],"used":[91],"them":[92],"web-based":[95],"RNASAlign":[97],"(http://www.bio8.cs.hku.hk/RNASAlign)":[98],"which":[99],"can":[100],"automatically":[101],"input":[104],"correct":[108],"type,":[109],"then":[110],"according":[115],"identified":[118],"type.":[119],"classification":[121],"proposed":[123],"paper":[126],"effective.":[131]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
