{"id":"https://openalex.org/W2119100681","doi":"https://doi.org/10.1093/bioinformatics/btr495","title":"Feature-based 3D motif filtering for ribosomal RNA","display_name":"Feature-based 3D motif filtering for ribosomal RNA","publication_year":2011,"publication_date":"2011-08-27","ids":{"openalex":"https://openalex.org/W2119100681","doi":"https://doi.org/10.1093/bioinformatics/btr495","mag":"2119100681","pmid":"https://pubmed.ncbi.nlm.nih.gov/21873638"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btr495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr495","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/20/2828/48872975/bioinformatics_27_20_2828.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/27/20/2828/48872975/bioinformatics_27_20_2828.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023837596","display_name":"Ying Shen","orcid":"https://orcid.org/0000-0003-0656-7377"},"institutions":[{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]},{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]}],"countries":["CN","HK"],"is_corresponding":true,"raw_author_name":"Ying Shen","raw_affiliation_strings":["1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China","institution_ids":["https://openalex.org/I168719708","https://openalex.org/I90610280"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014196059","display_name":"Hau\u2212San Wong","orcid":"https://orcid.org/0000-0002-1530-7529"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]},{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["CN","HK"],"is_corresponding":false,"raw_author_name":"Hau\u2212San Wong","raw_affiliation_strings":["1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China","institution_ids":["https://openalex.org/I168719708","https://openalex.org/I90610280"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101430628","display_name":"Shaohong Zhang","orcid":"https://orcid.org/0000-0003-1841-2348"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]},{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["CN","HK"],"is_corresponding":false,"raw_author_name":"Shaohong Zhang","raw_affiliation_strings":["1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China","institution_ids":["https://openalex.org/I168719708","https://openalex.org/I90610280"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100701158","display_name":"Zhiwen Yu","orcid":"https://orcid.org/0000-0002-0935-5890"},"institutions":[{"id":"https://openalex.org/I90610280","display_name":"South China University of Technology","ror":"https://ror.org/0530pts50","country_code":"CN","type":"education","lineage":["https://openalex.org/I90610280"]},{"id":"https://openalex.org/I168719708","display_name":"City University of Hong Kong","ror":"https://ror.org/03q8dnn23","country_code":"HK","type":"education","lineage":["https://openalex.org/I168719708"]}],"countries":["CN","HK"],"is_corresponding":false,"raw_author_name":"Zhiwen Yu","raw_affiliation_strings":["1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"1 Department of Computer Science, City University of Hong Kong, Kowloon, Hong Kong and 2The School of Computer Science and Engineering, South China University of Technology, Guangzhou, China","institution_ids":["https://openalex.org/I168719708","https://openalex.org/I90610280"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5023837596"],"corresponding_institution_ids":["https://openalex.org/I168719708","https://openalex.org/I90610280"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5212,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.65780418,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"27","issue":"20","first_page":"2828","last_page":"2835"},"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":0.9965000152587891,"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":0.9954000115394592,"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":0.7305071353912354},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5920392870903015},{"id":"https://openalex.org/keywords/structural-motif","display_name":"Structural motif","score":0.565301775932312},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.5432078242301941},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49593743681907654},{"id":"https://openalex.org/keywords/nucleic-acid-structure","display_name":"Nucleic acid structure","score":0.45548880100250244},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.36298179626464844},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34757107496261597},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.33830684423446655},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2967945635318756},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2574028968811035},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24897262454032898},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11062589287757874},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.08875101804733276}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.7305071353912354},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5920392870903015},{"id":"https://openalex.org/C132677234","wikidata":"https://www.wikidata.org/wiki/Q3273544","display_name":"Structural motif","level":2,"score":0.565301775932312},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.5432078242301941},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49593743681907654},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.45548880100250244},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.36298179626464844},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34757107496261597},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.33830684423446655},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2967945635318756},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2574028968811035},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24897262454032898},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11062589287757874},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.08875101804733276},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012335","descriptor_name":"RNA, Ribosomal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D054748","descriptor_name":"Ribosome Subunits, Large, Archaeal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D054748","descriptor_name":"Ribosome Subunits, Large, Archaeal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D054748","descriptor_name":"Ribosome Subunits, Large, Archaeal","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btr495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr495","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/20/2828/48872975/bioinformatics_27_20_2828.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:21873638","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21873638","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:27/20/2828","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/27/20/2828","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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btr495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr495","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/20/2828/48872975/bioinformatics_27_20_2828.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":[{"id":"https://metadata.un.org/sdg/11","score":0.8100000023841858,"display_name":"Sustainable cities and communities"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2119100681.pdf","grobid_xml":"https://content.openalex.org/works/W2119100681.grobid-xml"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W358380361","https://openalex.org/W1612748954","https://openalex.org/W1976526581","https://openalex.org/W1982680051","https://openalex.org/W1988409793","https://openalex.org/W2013902881","https://openalex.org/W2016302314","https://openalex.org/W2023209608","https://openalex.org/W2034023446","https://openalex.org/W2044247083","https://openalex.org/W2047026361","https://openalex.org/W2057605274","https://openalex.org/W2083510837","https://openalex.org/W2083734806","https://openalex.org/W2085158278","https://openalex.org/W2087377443","https://openalex.org/W2090007205","https://openalex.org/W2091705944","https://openalex.org/W2096378231","https://openalex.org/W2098431846","https://openalex.org/W2098871350","https://openalex.org/W2100262829","https://openalex.org/W2106246926","https://openalex.org/W2108403284","https://openalex.org/W2121447534","https://openalex.org/W2122679732","https://openalex.org/W2125101937","https://openalex.org/W2125221595","https://openalex.org/W2130479394","https://openalex.org/W2132129663","https://openalex.org/W2135300233","https://openalex.org/W2137526645","https://openalex.org/W2138559011","https://openalex.org/W2147088328","https://openalex.org/W2152379980","https://openalex.org/W2152839250","https://openalex.org/W2158073100","https://openalex.org/W2158856528","https://openalex.org/W2161968806","https://openalex.org/W2165348150","https://openalex.org/W2169271641","https://openalex.org/W2171235719","https://openalex.org/W6678709984","https://openalex.org/W6678893313","https://openalex.org/W6685035199"],"related_works":["https://openalex.org/W1472344963","https://openalex.org/W3093937951","https://openalex.org/W2554722417","https://openalex.org/W2470187006","https://openalex.org/W2368410102","https://openalex.org/W2581348958","https://openalex.org/W2264054990","https://openalex.org/W2986237709","https://openalex.org/W2581888268","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":2013,"cited_by_count":2},{"year":2012,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}