{"id":"https://openalex.org/W4385564477","doi":"https://doi.org/10.1093/bioinformatics/btad495","title":"CoCoNat: a novel method based on deep learning for coiled-coil prediction","display_name":"CoCoNat: a novel method based on deep learning for coiled-coil prediction","publication_year":2023,"publication_date":"2023-08-01","ids":{"openalex":"https://openalex.org/W4385564477","doi":"https://doi.org/10.1093/bioinformatics/btad495","pmid":"https://pubmed.ncbi.nlm.nih.gov/37540220"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad495","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad495/51038865/btad495.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","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/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad495/51038865/btad495.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057685121","display_name":"Giovanni Madeo","orcid":"https://orcid.org/0000-0002-7007-5353"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giovanni Madeo","raw_affiliation_strings":["Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy"],"affiliations":[{"raw_affiliation_string":"Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069439283","display_name":"Castrense Savojardo","orcid":"https://orcid.org/0000-0002-7359-0633"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Castrense Savojardo","raw_affiliation_strings":["Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy"],"affiliations":[{"raw_affiliation_string":"Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085360324","display_name":"Matteo Manfredi","orcid":"https://orcid.org/0000-0001-5479-1723"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Matteo Manfredi","raw_affiliation_strings":["Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy"],"affiliations":[{"raw_affiliation_string":"Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044479288","display_name":"Pier Luigi Martelli","orcid":"https://orcid.org/0000-0002-0274-5669"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Pier Luigi Martelli","raw_affiliation_strings":["Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy"],"affiliations":[{"raw_affiliation_string":"Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053410790","display_name":"Rita Casadio","orcid":"https://orcid.org/0000-0002-7462-7039"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Rita Casadio","raw_affiliation_strings":["Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy"],"affiliations":[{"raw_affiliation_string":"Biocomputing Group, Department of Pharmacy and Biotechnology, University of Bologna , Italy","institution_ids":["https://openalex.org/I9360294"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5057685121"],"corresponding_institution_ids":["https://openalex.org/I9360294"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":5.1443,"has_fulltext":true,"cited_by_count":34,"citation_normalized_percentile":{"value":0.96038701,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"39","issue":"8","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9997000098228455,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994000196456909,"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/T10521","display_name":"RNA and protein synthesis mechanisms","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"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.7927881479263306},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7550740838050842},{"id":"https://openalex.org/keywords/coiled-coil","display_name":"Coiled coil","score":0.6656001210212708},{"id":"https://openalex.org/keywords/conditional-random-field","display_name":"Conditional random field","score":0.6341205835342407},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.6253196597099304},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6114180088043213},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4813985824584961},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.43494361639022827},{"id":"https://openalex.org/keywords/test-set","display_name":"Test set","score":0.4200962781906128},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4190511703491211},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.36871910095214844},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13772839307785034}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.7927881479263306},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7550740838050842},{"id":"https://openalex.org/C55988834","wikidata":"https://www.wikidata.org/wiki/Q903650","display_name":"Coiled coil","level":2,"score":0.6656001210212708},{"id":"https://openalex.org/C152565575","wikidata":"https://www.wikidata.org/wiki/Q1124538","display_name":"Conditional random field","level":2,"score":0.6341205835342407},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.6253196597099304},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6114180088043213},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4813985824584961},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.43494361639022827},{"id":"https://openalex.org/C169903167","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Test set","level":2,"score":0.4200962781906128},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4190511703491211},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.36871910095214844},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13772839307785034},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","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/bioinformatics/btad495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad495","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad495/51038865/btad495.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37540220","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37540220","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:cris.unibo.it:11585/939936","is_oa":true,"landing_page_url":"https://academic.oup.com/bioinformatics/article/39/8/btad495/7237258","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/8/btad495/51111770/btad495.pdf","source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"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":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10425188","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10425188","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10425188/pdf/btad495.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad495","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad495","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad495/51038865/btad495.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.46000000834465027,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4385564477.pdf"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1543277803","https://openalex.org/W1961177618","https://openalex.org/W1982005006","https://openalex.org/W1984412128","https://openalex.org/W1987584191","https://openalex.org/W2017774235","https://openalex.org/W2024645073","https://openalex.org/W2032155561","https://openalex.org/W2064675550","https://openalex.org/W2116441099","https://openalex.org/W2117996955","https://openalex.org/W2119336981","https://openalex.org/W2125358782","https://openalex.org/W2129508689","https://openalex.org/W2145631315","https://openalex.org/W2147800946","https://openalex.org/W2147905080","https://openalex.org/W2161072217","https://openalex.org/W2162085776","https://openalex.org/W2187089797","https://openalex.org/W2254904118","https://openalex.org/W2496850373","https://openalex.org/W2553669656","https://openalex.org/W2907872701","https://openalex.org/W2923307471","https://openalex.org/W3108574850","https://openalex.org/W3112182945","https://openalex.org/W3177500196","https://openalex.org/W3211065052","https://openalex.org/W4306149279","https://openalex.org/W4316036303","https://openalex.org/W4323276421","https://openalex.org/W4327550249"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2356597680","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2114846443","https://openalex.org/W2392921965","https://openalex.org/W4389523750","https://openalex.org/W3099765033","https://openalex.org/W2997155179"],"abstract_inverted_index":{"CoCoNat":[0],"web":[1],"server":[2],"is":[3,9],"available":[4,10],"at":[5,13],"https://coconat.biocomp.unibo.it.":[6],"Standalone":[7],"version":[8],"on":[11],"GitHub":[12],"https://github.com/BolognaBiocomp/coconat.":[14]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":14}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2025-10-10T00:00:00"}
