{"id":"https://openalex.org/W2102015425","doi":"https://doi.org/10.1093/bioinformatics/bts600","title":"Towards the development of standardized methods for comparison, ranking and evaluation of structure alignments","display_name":"Towards the development of standardized methods for comparison, ranking and evaluation of structure alignments","publication_year":2012,"publication_date":"2012-10-11","ids":{"openalex":"https://openalex.org/W2102015425","doi":"https://doi.org/10.1093/bioinformatics/bts600","mag":"2102015425","pmid":"https://pubmed.ncbi.nlm.nih.gov/23060612"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts600","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts600","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/1/47/49060479/bioinformatics_29_1_47.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/29/1/47/49060479/bioinformatics_29_1_47.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042311097","display_name":"Alex W. Slater","orcid":null},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I182212641","display_name":"University of Salzburg","ror":"https://ror.org/05gs8cd61","country_code":"AT","type":"education","lineage":["https://openalex.org/I182212641"]},{"id":"https://openalex.org/I4210163394","display_name":"Millennium Institute on Immunology and Immunotherapy","ror":"https://ror.org/05j6ybs54","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210163394"]}],"countries":["AT","CL"],"is_corresponding":false,"raw_author_name":"Alex W. Slater","raw_affiliation_strings":["1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria","institution_ids":["https://openalex.org/I4210163394","https://openalex.org/I162148367","https://openalex.org/I182212641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023075368","display_name":"Javier Castellanos","orcid":null},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I182212641","display_name":"University of Salzburg","ror":"https://ror.org/05gs8cd61","country_code":"AT","type":"education","lineage":["https://openalex.org/I182212641"]},{"id":"https://openalex.org/I4210163394","display_name":"Millennium Institute on Immunology and Immunotherapy","ror":"https://ror.org/05j6ybs54","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210163394"]}],"countries":["AT","CL"],"is_corresponding":false,"raw_author_name":"Javier I. Castellanos","raw_affiliation_strings":["1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria","institution_ids":["https://openalex.org/I4210163394","https://openalex.org/I162148367","https://openalex.org/I182212641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028301579","display_name":"Manfred J. Sippl","orcid":null},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I182212641","display_name":"University of Salzburg","ror":"https://ror.org/05gs8cd61","country_code":"AT","type":"education","lineage":["https://openalex.org/I182212641"]},{"id":"https://openalex.org/I4210163394","display_name":"Millennium Institute on Immunology and Immunotherapy","ror":"https://ror.org/05j6ybs54","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210163394"]}],"countries":["AT","CL"],"is_corresponding":false,"raw_author_name":"Manfred J. Sippl","raw_affiliation_strings":["1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria","institution_ids":["https://openalex.org/I4210163394","https://openalex.org/I162148367","https://openalex.org/I182212641"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032046108","display_name":"Francisco Melo","orcid":"https://orcid.org/0000-0002-0424-5991"},"institutions":[{"id":"https://openalex.org/I162148367","display_name":"Pontificia Universidad Cat\u00f3lica de Chile","ror":"https://ror.org/04teye511","country_code":"CL","type":"education","lineage":["https://openalex.org/I162148367"]},{"id":"https://openalex.org/I182212641","display_name":"University of Salzburg","ror":"https://ror.org/05gs8cd61","country_code":"AT","type":"education","lineage":["https://openalex.org/I182212641"]},{"id":"https://openalex.org/I4210163394","display_name":"Millennium Institute on Immunology and Immunotherapy","ror":"https://ror.org/05j6ybs54","country_code":"CL","type":"facility","lineage":["https://openalex.org/I4210163394"]}],"countries":["AT","CL"],"is_corresponding":true,"raw_author_name":"Francisco Melo","raw_affiliation_strings":["1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Molecular Bioinformatics Laboratory, Millennium Institute on Immunology and Immunotherapy, Portugal 49, Santiago, CP 8330025, 2Departamento de Gen\u00e9tica Molecular y Microbiolog\u00eda, Facultad de Ciencias Biol\u00f3gicas, Pontificia Universidad Cat\u00f3lica de Chile, Alameda 340, Santiago, Chile and 3Center of Applied Molecular Engineering, Division of Bioinformatics, Department of Molecular Biology, University of Salzburg, Hellbrunnerstrasse 34, 5020 Salzburg, Austria","institution_ids":["https://openalex.org/I4210163394","https://openalex.org/I162148367","https://openalex.org/I182212641"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5032046108"],"corresponding_institution_ids":["https://openalex.org/I162148367","https://openalex.org/I182212641","https://openalex.org/I4210163394"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.9269,"has_fulltext":true,"cited_by_count":19,"citation_normalized_percentile":{"value":0.73803091,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"29","issue":"1","first_page":"47","last_page":"53"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.5806999802589417,"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":0.5806999802589417,"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":0.37439998984336853,"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"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.002899999963119626,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7284374833106995},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.6415662169456482},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.599618136882782},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.5887528657913208},{"id":"https://openalex.org/keywords/ranking","display_name":"Ranking (information retrieval)","score":0.5643383264541626},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.5260253548622131},{"id":"https://openalex.org/keywords/rank","display_name":"Rank (graph theory)","score":0.5233475565910339},{"id":"https://openalex.org/keywords/translation","display_name":"Translation (biology)","score":0.5121102333068848},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.49703696370124817},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4598027765750885},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.42835694551467896},{"id":"https://openalex.org/keywords/rotation","display_name":"Rotation (mathematics)","score":0.4120582938194275},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.40818047523498535},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3717554211616516},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.36906877160072327},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.36520639061927795},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.15565815567970276},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08201605081558228}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7284374833106995},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.6415662169456482},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.599618136882782},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.5887528657913208},{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.5643383264541626},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.5260253548622131},{"id":"https://openalex.org/C164226766","wikidata":"https://www.wikidata.org/wiki/Q7293202","display_name":"Rank (graph theory)","level":2,"score":0.5233475565910339},{"id":"https://openalex.org/C149364088","wikidata":"https://www.wikidata.org/wiki/Q185917","display_name":"Translation (biology)","level":4,"score":0.5121102333068848},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.49703696370124817},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4598027765750885},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.42835694551467896},{"id":"https://openalex.org/C74050887","wikidata":"https://www.wikidata.org/wiki/Q848368","display_name":"Rotation (mathematics)","level":2,"score":0.4120582938194275},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.40818047523498535},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3717554211616516},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.36906877160072327},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.36520639061927795},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.15565815567970276},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08201605081558228},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","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":"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":"D008958","descriptor_name":"Models, Molecular","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":"D011506","descriptor_name":"Proteins","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bts600","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts600","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/1/47/49060479/bioinformatics_29_1_47.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23060612","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23060612","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:americanae.aecid.es:3335339","is_oa":true,"landing_page_url":"http://americanae.aecid.es/americanae/es/registros/registro.do?tipoRegistro=MTD&idBib=3335339","pdf_url":null,"source":{"id":"https://openalex.org/S4306400786","display_name":"Americanae (AECID Library)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BIOINFORMATICS","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:localhost:10533/133952","is_oa":true,"landing_page_url":"http://hdl.handle.net/10533/133952","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BIOINFORMATICS","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts600","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts600","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/1/47/49060479/bioinformatics_29_1_47.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","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/17","display_name":"Partnerships for the goals","score":0.4300000071525574}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321181","display_name":"Austrian Science Fund","ror":"https://ror.org/013tf3c58"},{"id":"https://openalex.org/F4320334812","display_name":"Comisi\u00f3n Nacional de Investigaci\u00f3n Cient\u00edfica y Tecnol\u00f3gica","ror":"https://ror.org/02ap3w078"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2102015425.pdf","grobid_xml":"https://content.openalex.org/works/W2102015425.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1499490273","https://openalex.org/W1998166662","https://openalex.org/W2004178884","https://openalex.org/W2031901496","https://openalex.org/W2056807348","https://openalex.org/W2065283382","https://openalex.org/W2081771568","https://openalex.org/W2087064593","https://openalex.org/W2098125835","https://openalex.org/W2102245393","https://openalex.org/W2108107014","https://openalex.org/W2110397834","https://openalex.org/W2116995042","https://openalex.org/W2125062378","https://openalex.org/W2125898812","https://openalex.org/W2126016150","https://openalex.org/W2136567909","https://openalex.org/W2146104454","https://openalex.org/W2152326664","https://openalex.org/W3214380909"],"related_works":["https://openalex.org/W2029514038","https://openalex.org/W2051969447","https://openalex.org/W2111937814","https://openalex.org/W1482324242","https://openalex.org/W2129361631","https://openalex.org/W1985408726","https://openalex.org/W2088487249","https://openalex.org/W2187357871","https://openalex.org/W2903170547","https://openalex.org/W4389053053"],"abstract_inverted_index":{"MOTIVATION:":[0],"Pairwise":[1],"alignment":[2,56,89,117,140,161,169,189,235,265],"of":[3,29,47,54,65,79,98,101,131,138,155,187,200,218,245,247],"protein":[4,30,206],"structures":[5,157],"is":[6,91,94,170,190,252,283],"a":[7,26,76,105,132,178],"fundamental":[8],"task":[9],"in":[10,18,44,62,84,173,205,211,224,227,258,266],"structural":[11],"bioinformatics.":[12],"There":[13],"are":[14,58,119],"numerous":[15],"computer":[16,275],"programs":[17,39,49,57,70,118,204,220,257],"the":[19,33,37,45,50,55,59,63,72,99,107,114,127,136,145,153,160,164,185,188,191,201,219,230,233,242,263,267,279],"public":[20],"domain":[21],"that":[22,92,198,277],"produce":[23],"alignments":[24],"for":[25,75,135],"given":[27,77],"pair":[28,78],"structures,":[31],"but":[32,158],"results":[34,90],"obtained":[35],"by":[36,113,163],"various":[38],"generally":[40],"differ":[41,209],"substantially.":[42],"Hence,":[43,240],"application":[46,130],"such":[48],"question":[51],"arises":[52],"which":[53,69],"most":[60,193,202],"trustworthy":[61],"sense":[64],"overall":[66,213],"performance,":[67],"and":[68,87,110,129,148,232,260],"provide":[71],"best":[73,231],"result":[74],"proteins.":[80],"The":[81,142,167,274],"major":[82],"problem":[83],"comparing,":[85],"evaluating":[86],"judging":[88],"there":[93],"no":[95],"clear":[96],"notion":[97],"optimality":[100],"an":[102],"alignment.":[103],"As":[104],"consequence,":[106],"numeric":[108],"criteria":[109],"scores":[111],"reported":[112,162,269],"individual":[115,165],"structure":[116,139,207,248],"largely":[120],"incomparable.":[121],"RESULTS:":[122],"Here":[123],"we":[124],"report":[125],"on":[126,177],"development":[128,246],"new":[133],"approach":[134],"evaluation":[137],"results.":[141],"method":[143,280],"uses":[144],"translation":[146],"vector":[147],"rotation":[149],"matrix":[150],"to":[151,254,261],"generate":[152],"superposition":[154],"two":[156],"discards":[159],"programs.":[166],"optimal":[168,264],"then":[171],"generated":[172],"standardized":[174],"form":[175],"based":[176],"suitably":[179],"implemented":[180],"dynamic":[181],"programming":[182],"algorithm":[183],"where":[184],"length":[186],"single":[192],"informative":[194],"parameter.":[195],"We":[196],"demonstrate":[197],"some":[199],"popular":[203],"research":[208],"considerably":[210],"their":[212],"performance.":[214],"In":[215],"particular,":[216],"each":[217],"investigated":[221],"here":[222,282],"produced":[223],"at":[225,241,286],"least":[226],"one":[228],"case":[229],"worst":[234],"compared":[236],"with":[237],"all":[238],"others.":[239],"current":[243],"state":[244],"comparison":[249],"techniques,":[250],"it":[251],"advisable":[253],"use":[255],"several":[256],"parallel":[259],"choose":[262],"way":[268],"here.":[270],"AVAILABILITY":[271],"AND":[272],"IMPLEMENTATION:":[273],"software":[276],"implement":[278],"described":[281],"freely":[284],"available":[285],"http://melolab.org/stovca.":[287]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":3}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
