{"id":"https://openalex.org/W2104420868","doi":"https://doi.org/10.1093/nar/gku438","title":"COGNAC: a web server for searching and annotating hydrogen-bonded base interactions in RNA three-dimensional structures","display_name":"COGNAC: a web server for searching and annotating hydrogen-bonded base interactions in RNA three-dimensional structures","publication_year":2014,"publication_date":"2014-05-15","ids":{"openalex":"https://openalex.org/W2104420868","doi":"https://doi.org/10.1093/nar/gku438","mag":"2104420868","pmid":"https://pubmed.ncbi.nlm.nih.gov/24831543"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gku438","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku438","pdf_url":"https://academic.oup.com/nar/article-pdf/42/W1/W382/7448109/gku438.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/42/W1/W382/7448109/gku438.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070763648","display_name":"Mohd Firdaus\u2010Raih","orcid":"https://orcid.org/0000-0003-4275-4663"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":true,"raw_author_name":"Mohd Firdaus-Raih","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia Institute of Systems Biology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia firdaus@mfrlab.org","Institute of Systems Biology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia Institute of Systems Biology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia firdaus@mfrlab.org","institution_ids":["https://openalex.org/I885383172"]},{"raw_affiliation_string":"Institute of Systems Biology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]},{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048356979","display_name":"Hazrina Yusof Hamdani","orcid":"https://orcid.org/0000-0003-3973-9921"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"Hazrina Yusof Hamdani","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045063601","display_name":"Nurul Nadzirin","orcid":"https://orcid.org/0000-0001-9080-2653"},"institutions":[{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"Nurul Nadzirin","raw_affiliation_strings":["School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biosciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Malaysia","institution_ids":["https://openalex.org/I885383172"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014901980","display_name":"Effirul Ikhwan Ramlan","orcid":"https://orcid.org/0000-0002-8150-4782"},"institutions":[{"id":"https://openalex.org/I33849332","display_name":"University of Malaya","ror":"https://ror.org/00rzspn62","country_code":"MY","type":"education","lineage":["https://openalex.org/I33849332"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"Effirul Ikhwan Ramlan","raw_affiliation_strings":["Department of Artificial Intelligence, Faculty of Computer Science and Information Technology, University of Malaya, 50603 Kuala Lumpur, Malaysia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Artificial Intelligence, Faculty of Computer Science and Information Technology, University of Malaya, 50603 Kuala Lumpur, Malaysia","institution_ids":["https://openalex.org/I33849332"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102885255","display_name":"Peter Willett","orcid":"https://orcid.org/0000-0003-4591-7173"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Peter Willett","raw_affiliation_strings":["Information School, University of Sheffield, Western Bank, Sheffield S10 2TN, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Information School, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I91136226"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108421722","display_name":"Peter J. Artymiuk","orcid":null},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Peter J. Artymiuk","raw_affiliation_strings":["Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology and Biotechnology, Krebs Institute, University of Sheffield, Western Bank, Sheffield S10 2TN, UK","institution_ids":["https://openalex.org/I91136226"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5070763648"],"corresponding_institution_ids":["https://openalex.org/I885383172"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.5198,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.64711119,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"42","issue":"W1","first_page":"W382","last_page":"W388"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","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/T10044","display_name":"Protein Structure and Dynamics","score":0.9990000128746033,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/hydrogen-bond","display_name":"Hydrogen bond","score":0.7333390116691589},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.7179770469665527},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.5860664248466492},{"id":"https://openalex.org/keywords/nucleic-acid","display_name":"Nucleic acid","score":0.5340614914894104},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5198424458503723},{"id":"https://openalex.org/keywords/base-pair","display_name":"Base pair","score":0.49962425231933594},{"id":"https://openalex.org/keywords/hydrogen","display_name":"Hydrogen","score":0.4673968255519867},{"id":"https://openalex.org/keywords/molecule","display_name":"Molecule","score":0.4533188045024872},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45114657282829285},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.44142892956733704},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.43065235018730164},{"id":"https://openalex.org/keywords/chemical-physics","display_name":"Chemical physics","score":0.3719991445541382},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3489444851875305},{"id":"https://openalex.org/keywords/crystallography","display_name":"Crystallography","score":0.3205142617225647},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.26554054021835327},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.260390043258667},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.21483519673347473},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2120952606201172},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15510293841362},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.12947341799736023},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08682265877723694}],"concepts":[{"id":"https://openalex.org/C112887158","wikidata":"https://www.wikidata.org/wiki/Q169324","display_name":"Hydrogen bond","level":3,"score":0.7333390116691589},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.7179770469665527},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.5860664248466492},{"id":"https://openalex.org/C24107716","wikidata":"https://www.wikidata.org/wiki/Q123619","display_name":"Nucleic acid","level":2,"score":0.5340614914894104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5198424458503723},{"id":"https://openalex.org/C185581394","wikidata":"https://www.wikidata.org/wiki/Q145911","display_name":"Base pair","level":3,"score":0.49962425231933594},{"id":"https://openalex.org/C512968161","wikidata":"https://www.wikidata.org/wiki/Q556","display_name":"Hydrogen","level":2,"score":0.4673968255519867},{"id":"https://openalex.org/C32909587","wikidata":"https://www.wikidata.org/wiki/Q11369","display_name":"Molecule","level":2,"score":0.4533188045024872},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45114657282829285},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.44142892956733704},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43065235018730164},{"id":"https://openalex.org/C159467904","wikidata":"https://www.wikidata.org/wiki/Q2001702","display_name":"Chemical physics","level":1,"score":0.3719991445541382},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3489444851875305},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.3205142617225647},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.26554054021835327},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.260390043258667},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.21483519673347473},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2120952606201172},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15510293841362},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.12947341799736023},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08682265877723694},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","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":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gku438","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku438","pdf_url":"https://academic.oup.com/nar/article-pdf/42/W1/W382/7448109/gku438.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:24831543","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24831543","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:eprints.whiterose.ac.uk:99144","is_oa":false,"landing_page_url":"http://eprints.whiterose.ac.uk/99144/1/COGNAC%3A%20a%20web%20server%20for%20searching%20and%20annotating%20hydrogen-bonded%20base%20interactions%20in%20RNA%20three-dimensional%20structures.pdf","pdf_url":"http://eprints.whiterose.ac.uk/99144/1/COGNAC%3A%20a%20web%20server%20for%20searching%20and%20annotating%20hydrogen-bonded%20base%20interactions%20in%20RNA%20three-dimensional%20structures.pdf","source":{"id":"https://openalex.org/S4306400854","display_name":"White Rose Research Online (University of Leeds, The University of Sheffield, University of York)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2800616092","host_organization_name":"White Rose University Consortium","host_organization_lineage":["https://openalex.org/I2800616092"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:3176824","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4086061","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gku438","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gku438","pdf_url":"https://academic.oup.com/nar/article-pdf/42/W1/W382/7448109/gku438.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321709","display_name":"Ministry of Higher Education, Malaysia","ror":"https://ror.org/05mcs2t73"},{"id":"https://openalex.org/F4320322604","display_name":"Universiti Malaya","ror":"https://ror.org/00rzspn62"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"},{"id":"https://openalex.org/F4320322757","display_name":"Universiti Sains Malaysia","ror":"https://ror.org/02rgb2k63"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104420868.pdf","grobid_xml":"https://content.openalex.org/works/W2104420868.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1548107888","https://openalex.org/W1982680051","https://openalex.org/W1985775264","https://openalex.org/W1995554116","https://openalex.org/W2007615447","https://openalex.org/W2014316770","https://openalex.org/W2018838912","https://openalex.org/W2020657839","https://openalex.org/W2021134381","https://openalex.org/W2042810789","https://openalex.org/W2051628563","https://openalex.org/W2052841473","https://openalex.org/W2086561953","https://openalex.org/W2090278190","https://openalex.org/W2096327663","https://openalex.org/W2106478835","https://openalex.org/W2120418017","https://openalex.org/W2126359798","https://openalex.org/W2130350435","https://openalex.org/W2131575287","https://openalex.org/W2132356468","https://openalex.org/W2134425918","https://openalex.org/W2137001143","https://openalex.org/W2144366714","https://openalex.org/W2151538750","https://openalex.org/W2164844918","https://openalex.org/W2166458835","https://openalex.org/W2167955222"],"related_works":["https://openalex.org/W2079346183","https://openalex.org/W2946825394","https://openalex.org/W2315260251","https://openalex.org/W2500179633","https://openalex.org/W2788975530","https://openalex.org/W3094816455","https://openalex.org/W1979017969","https://openalex.org/W1996887642","https://openalex.org/W3001773073","https://openalex.org/W2049473277"],"abstract_inverted_index":{"Hydrogen":[0],"bonds":[1],"are":[2],"crucial":[3],"factors":[4],"that":[5,75,131],"stabilize":[6],"a":[7,29,66,72],"complex":[8],"ribonucleic":[9],"acid":[10],"(RNA)":[11],"molecule's":[12],"three-dimensional":[13],"(3D)":[14],"structure.":[15,31],"Minute":[16],"conformational":[17,136],"changes":[18,137],"can":[19,53,147],"result":[20],"in":[21,23,28,40,47,95],"variations":[22],"the":[24,113,125],"hydrogen":[25,35,114],"bond":[26,115],"interactions":[27,86,94],"particular":[30],"Furthermore,":[32],"networks":[33,82,116],"of":[34,83,92,127],"bonds,":[36],"especially":[37],"those":[38],"found":[39],"tight":[41],"clusters,":[42],"may":[43,132],"be":[44,55,148],"important":[45],"elements":[46],"structure":[48],"stabilization":[49],"or":[50,141],"function":[51],"and":[52,87,120],"therefore":[54],"regarded":[56],"as":[57,71],"potential":[58],"tertiary":[59],"motifs.":[60],"In":[61],"this":[62],"paper,":[63],"we":[64],"describe":[65],"graph":[67],"theoretical":[68],"algorithm":[69],"implemented":[70],"web":[73],"server":[74,146],"is":[76,108],"able":[77,110],"to":[78,111,139],"search":[79],"for":[80,105],"unbroken":[81],"hydrogen-bonded":[84],"base":[85],"thus":[88],"provide":[89],"an":[90],"accounting":[91],"such":[93,122],"RNA":[96],"3D":[97],"structures.":[98],"This":[99],"server,":[100],"COGNAC":[101,145],"(COnnection":[102],"tables":[103],"Graphs":[104],"Nucleic":[106],"ACids),":[107],"also":[109],"compare":[112],"between":[117],"two":[118],"structures":[119],"from":[121,135],"annotations":[123],"enable":[124],"mapping":[126],"atomic":[128],"level":[129],"differences":[130],"have":[133],"resulted":[134],"due":[138],"mutations":[140],"binding":[142],"events.":[143],"The":[144],"accessed":[149],"at":[150],"http://mfrlab.org/grafss/cognac.":[151]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":3}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
