{"id":"https://openalex.org/W2159427685","doi":"https://doi.org/10.1186/1471-2105-6-s4-s8","title":"Secondary structure assignment that accurately reflects physical and evolutionary characteristics","display_name":"Secondary structure assignment that accurately reflects physical and evolutionary characteristics","publication_year":2005,"publication_date":"2005-12-01","ids":{"openalex":"https://openalex.org/W2159427685","doi":"https://doi.org/10.1186/1471-2105-6-s4-s8","mag":"2159427685","pmid":"https://pubmed.ncbi.nlm.nih.gov/16351757"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-6-s4-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-s4-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-S4-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-S4-S8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010599632","display_name":"Maria Vittoria Cubellis","orcid":"https://orcid.org/0000-0001-6147-6553"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I4210135132","display_name":"Cambridge University Press","ror":"https://ror.org/03jsdjx34","country_code":"GB","type":"company","lineage":["https://openalex.org/I241749","https://openalex.org/I4210135132"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Maria Vittoria Cubellis","raw_affiliation_strings":["Biochemistry Dept, University of Cambridge, Cambridge CB2 1GA, UK. cubellis@unina.it","Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge CB2 1GA, UK. cubellis@unina.it","institution_ids":["https://openalex.org/I4210135132"]},{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021947262","display_name":"Fabien Cailliez","orcid":"https://orcid.org/0000-0002-4415-0348"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I4210107423","display_name":"Institut de Biologie Physico-Chimique","ror":"https://ror.org/01na0pb61","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210107423"]}],"countries":["FR","GB"],"is_corresponding":false,"raw_author_name":"Fabien Cailliez","raw_affiliation_strings":["Biochemistry Dept, University of Cambridge, Cambridge, UK","Institut de Biologie Physico-Chimique, Paris, France","Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Institut de Biologie Physico-Chimique, Paris, France","institution_ids":["https://openalex.org/I4210107423"]},{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5000605194","display_name":"Simon C. Lovell","orcid":"https://orcid.org/0000-0002-4092-8458"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Simon C Lovell","raw_affiliation_strings":["Biochemistry Dept, University of Cambridge, Cambridge, UK","Faculty of Life Sciences, University of Manchester, Manchester, UK","Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Faculty of Life Sciences, University of Manchester, Manchester, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Biochemistry Dept, University of Cambridge, Cambridge, CB2 1GA, UK","institution_ids":["https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.9501,"has_fulltext":true,"cited_by_count":63,"citation_normalized_percentile":{"value":0.73139763,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"6","issue":"S4","first_page":"S8","last_page":"S8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.7835999727249146,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.7835999727249146,"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/T10798","display_name":"Crystallography and molecular interactions","score":0.024900000542402267,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.02419999986886978,"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/dna-microarray","display_name":"DNA microarray","score":0.5659222602844238},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5433192849159241},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4800321161746979},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44157448410987854},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4163523316383362},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3313540518283844},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2906349301338196},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08658602833747864}],"concepts":[{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5659222602844238},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5433192849159241},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4800321161746979},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44157448410987854},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4163523316383362},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3313540518283844},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2906349301338196},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08658602833747864},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":"D006860","descriptor_name":"Hydrogen Bonding","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":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011392","descriptor_name":"Proline","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":8,"locations":[{"id":"doi:10.1186/1471-2105-6-s4-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-s4-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-S4-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:16351757","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16351757","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pure.atira.dk:openaire_cris_publications/fd23162c-1317-47ed-a265-5211ee2b54cf","is_oa":false,"landing_page_url":"https://research.manchester.ac.uk/en/publications/fd23162c-1317-47ed-a265-5211ee2b54cf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Cubellis, M V, Cailliez, F & Lovell, S C 2005, 'Secondary structure assignment that accurately reflects physical and evolutionary characteristics', BMC Bioinformatics, vol. 6, no. 4, S8. https://doi.org/10.1186/1471-2105-6-S4-S8","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:1351196","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1866377","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"},{"id":"pmh:oai:HAL:hal-04032517v1","is_oa":false,"landing_page_url":"https://universite-paris-saclay.hal.science/hal-04032517","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, 2005, 6 (S4), pp.S8. &#x27E8;10.1186/1471-2105-6-s4-s8&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:f4a0af66735f4657bfae5b3f3cdf890e","is_oa":false,"landing_page_url":"https://doaj.org/article/f4a0af66735f4657bfae5b3f3cdf890e","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"BMC Bioinformatics, Vol 6, Iss Suppl 4, p S8 (2005)","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/fd23162c-1317-47ed-a265-5211ee2b54cf","is_oa":false,"landing_page_url":"https://www.research.manchester.ac.uk/portal/en/publications/secondary-structure-assignment-that-accurately-reflects-physical-and-evolutionary-characteristics(fd23162c-1317-47ed-a265-5211ee2b54cf).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400662","display_name":"Research Explorer (The University of Manchester)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I28407311","host_organization_name":"University of Manchester","host_organization_lineage":["https://openalex.org/I28407311"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Cubellis, M V, Cailliez, F & Lovell, S C 2005, 'Secondary structure assignment that accurately reflects physical and evolutionary characteristics', BMC Bioinformatics, vol. 6, no. 4, S8. https://doi.org/10.1186/1471-2105-6-S4-S8","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:www.repository.cam.ac.uk:1810/238083","is_oa":true,"landing_page_url":"http://www.dspace.cam.ac.uk/handle/1810/238083","pdf_url":null,"source":{"id":"https://openalex.org/S4306401777","display_name":"Apollo (University of Cambridge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I241749","host_organization_name":"University of Cambridge","host_organization_lineage":["https://openalex.org/I241749"],"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":"Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-6-s4-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-6-s4-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-6-S4-S8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2159427685.pdf","grobid_xml":"https://content.openalex.org/works/W2159427685.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1554728849","https://openalex.org/W1969007008","https://openalex.org/W1992589673","https://openalex.org/W2004178884","https://openalex.org/W2004228538","https://openalex.org/W2008708467","https://openalex.org/W2012334384","https://openalex.org/W2035352107","https://openalex.org/W2056770911","https://openalex.org/W2065385636","https://openalex.org/W2072511197","https://openalex.org/W2074986801","https://openalex.org/W2081359387","https://openalex.org/W2084466582","https://openalex.org/W2086719212","https://openalex.org/W2088828240","https://openalex.org/W2090022310","https://openalex.org/W2097869477","https://openalex.org/W2105321472","https://openalex.org/W2108067237","https://openalex.org/W2117077088","https://openalex.org/W2117797134","https://openalex.org/W2141920771","https://openalex.org/W2150155770","https://openalex.org/W2156367275","https://openalex.org/W2158133029","https://openalex.org/W3047703793","https://openalex.org/W3107148387","https://openalex.org/W4235848672"],"related_works":["https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W2151865869","https://openalex.org/W2117258802","https://openalex.org/W2061542922"],"abstract_inverted_index":{"BACKGROUND:":[0],"Secondary":[1],"structure":[2,31,41,45,111,131,232,265,276],"is":[3,49,197,269,291],"used":[4],"in":[5,54,58],"hierarchical":[6],"classification":[7],"of":[8,12,46,62,124,136,158,164,175,245,287],"protein":[9,13,48],"structures,":[10],"identification":[11],"features,":[14],"such":[15,80],"as":[16,25,81,90],"helix":[17,250],"caps":[18,251],"and":[19,24,84,189,200,263,284],"loops,":[20],"for":[21,38,108],"fold":[22],"recognition,":[23],"a":[26,104,120,134,159,205],"precursor":[27],"to":[28,259],"ab":[29],"initio":[30],"prediction.":[32],"There":[33],"are":[34,140,170,183,216,252],"several":[35],"methods":[36,68,242],"available":[37,292],"assigning":[39,109],"secondary":[40,77,110,125,130,231,254,264,275],"if":[42],"the":[43,47,59,63,155,173,176],"three-dimensional":[44],"known.":[50],"Unfortunately":[51],"they":[52,91,145],"differ":[53],"their":[55],"definitions,":[56],"particularly":[57],"exact":[60],"positions":[61],"termini.":[64],"Additionally,":[65],"most":[66],"existing":[67,234],"rely":[69],"on":[70,113,133,143,172,186],"hydrogen":[71,195],"bonding,":[72],"which":[73,117],"means":[74],"that":[75,226,239,274],"important":[76],"structural":[78,255],"classes,":[79],"isolated":[82],"beta-strands":[83,182,201],"poly-proline":[85],"helices":[86,165,215],"cannot":[87],"be":[88,153,203,212,260],"identified":[89],"do":[92],"not":[93,198],"have":[94,102],"characteristic":[95],"hydrogen-bonding":[96],"patterns.":[97],"For":[98],"this":[99],"reason":[100],"we":[101,237],"developed":[103],"more":[105,121],"accurate":[106],"method":[107,228,280],"based":[112,132,142,185],"main":[114],"chain":[115],"geometry,":[116],"also":[118],"allows":[119],"comprehensive":[122],"assignment":[123],"structure.":[126],"RESULTS:":[127],"We":[128,224,271],"define":[129],"number":[135],"geometric":[137],"parameters.":[138],"Helices":[139],"defined":[141,217],"whether":[144],"fit":[146],"inside":[147],"an":[148],"imaginary":[149],"cylinder:":[150],"residues":[151],"must":[152],"within":[154,204],"correct":[156],"radius":[157],"central":[160],"axis.":[161],"Different":[162],"types":[163],"(alpha,":[166],"3(10)":[167],"or":[168,210],"pi)":[169],"assigned":[171,184],"basis":[174],"angle":[177],"between":[178],"successive":[179],"peptide":[180,192],"bonds.":[181,193],"backbone":[187],"dihedrals":[188],"with":[190,220,243],"alternating":[191],"Thus":[194],"bonding":[196],"required":[199],"can":[202,211],"parallel":[206],"sheet,":[207,209],"antiparallel":[208],"isolated.":[213],"Poly-proline":[214],"similarly,":[218],"although":[219],"three-fold":[221],"symmetry.":[222],"CONCLUSION:":[223],"find":[225,238],"our":[227,241,279],"better":[229,281],"assigns":[230],"than":[233],"methods.":[235],"Specifically,":[236],"comparing":[240],"those":[244],"others,":[246],"amino-acid":[247],"trends":[248],"at":[249],"stronger,":[253],"elements":[256],"less":[257],"likely":[258],"concatenated":[261],"together":[262],"guided":[266],"sequence":[267],"alignment":[268],"improved.":[270],"conclude,":[272],"therefore,":[273],"assignments":[277],"using":[278],"reflects":[282],"physical":[283],"evolutionary":[285],"characteristics":[286],"proteins.":[288],"The":[289],"program":[290],"from":[293],"http://www.bioinf.man.ac.uk/~lovell/segno.shtml.":[294]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":8},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":3}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
