{"id":"https://openalex.org/W2905812122","doi":"https://doi.org/10.1093/bioinformatics/bty1037","title":"Smooth orientation-dependent scoring function for coarse-grained protein quality assessment","display_name":"Smooth orientation-dependent scoring function for coarse-grained protein quality assessment","publication_year":2018,"publication_date":"2018-12-19","ids":{"openalex":"https://openalex.org/W2905812122","doi":"https://doi.org/10.1093/bioinformatics/bty1037","mag":"2905812122","pmid":"https://pubmed.ncbi.nlm.nih.gov/30590384"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty1037","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1037","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://hdl.handle.net/20.500.11850/372049","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085609478","display_name":"Mikhail Karasikov","orcid":"https://orcid.org/0000-0001-6200-5972"},"institutions":[{"id":"https://openalex.org/I106785703","display_name":"Institut polytechnique de Grenoble","ror":"https://ror.org/05sbt2524","country_code":"FR","type":"education","lineage":["https://openalex.org/I106785703","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I125989756","display_name":"Skolkovo Institute of Science and Technology","ror":"https://ror.org/03f9nc143","country_code":"RU","type":"education","lineage":["https://openalex.org/I125989756"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I153845743","display_name":"Moscow Institute of Physics and Technology","ror":"https://ror.org/00v0z9322","country_code":"RU","type":"education","lineage":["https://openalex.org/I153845743"]},{"id":"https://openalex.org/I4210101348","display_name":"Centre Inria de l'Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/00n8d6z93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210101348"]},{"id":"https://openalex.org/I4210149092","display_name":"Laboratoire Jean Kuntzmann","ror":"https://ror.org/04ett5b41","country_code":"FR","type":"facility","lineage":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I4210149092","https://openalex.org/I899635006","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I899635006","display_name":"Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/02rx3b187","country_code":"FR","type":"education","lineage":["https://openalex.org/I899635006"]}],"countries":["FR","RU"],"is_corresponding":true,"raw_author_name":"Mikhail Karasikov","raw_affiliation_strings":["Center for Energy Systems, Skolkovo Institute of Science and Technology, Moscow, Russia","Moscow Institute of Physics and Technology, Moscow, Russia","Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France"],"raw_orcid":"https://orcid.org/0000-0001-6200-5972","affiliations":[{"raw_affiliation_string":"Center for Energy Systems, Skolkovo Institute of Science and Technology, Moscow, Russia","institution_ids":["https://openalex.org/I125989756"]},{"raw_affiliation_string":"Moscow Institute of Physics and Technology, Moscow, Russia","institution_ids":["https://openalex.org/I153845743"]},{"raw_affiliation_string":"Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France","institution_ids":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I4210101348","https://openalex.org/I4210149092","https://openalex.org/I899635006"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004359429","display_name":"Guillaume Pag\u00e8s","orcid":null},"institutions":[{"id":"https://openalex.org/I106785703","display_name":"Institut polytechnique de Grenoble","ror":"https://ror.org/05sbt2524","country_code":"FR","type":"education","lineage":["https://openalex.org/I106785703","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210101348","display_name":"Centre Inria de l'Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/00n8d6z93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210101348"]},{"id":"https://openalex.org/I4210149092","display_name":"Laboratoire Jean Kuntzmann","ror":"https://ror.org/04ett5b41","country_code":"FR","type":"facility","lineage":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I4210149092","https://openalex.org/I899635006","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I899635006","display_name":"Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/02rx3b187","country_code":"FR","type":"education","lineage":["https://openalex.org/I899635006"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Pag\u00e8s","raw_affiliation_strings":["Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France","institution_ids":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I4210101348","https://openalex.org/I4210149092","https://openalex.org/I899635006"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009307435","display_name":"Sergei Grudinin","orcid":"https://orcid.org/0000-0002-1903-7220"},"institutions":[{"id":"https://openalex.org/I106785703","display_name":"Institut polytechnique de Grenoble","ror":"https://ror.org/05sbt2524","country_code":"FR","type":"education","lineage":["https://openalex.org/I106785703","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210101348","display_name":"Centre Inria de l'Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/00n8d6z93","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210101348"]},{"id":"https://openalex.org/I4210149092","display_name":"Laboratoire Jean Kuntzmann","ror":"https://ror.org/04ett5b41","country_code":"FR","type":"facility","lineage":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I4210149092","https://openalex.org/I899635006","https://openalex.org/I899635006"]},{"id":"https://openalex.org/I899635006","display_name":"Universit\u00e9 Grenoble Alpes","ror":"https://ror.org/02rx3b187","country_code":"FR","type":"education","lineage":["https://openalex.org/I899635006"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Sergei Grudinin","raw_affiliation_strings":["Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France"],"raw_orcid":"https://orcid.org/0000-0002-1903-7220","affiliations":[{"raw_affiliation_string":"Univ. Grenoble Alpes, Inria, CNRS, Grenoble INP, LJK, Grenoble, France","institution_ids":["https://openalex.org/I106785703","https://openalex.org/I1294671590","https://openalex.org/I4210101348","https://openalex.org/I4210149092","https://openalex.org/I899635006"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5009307435","https://openalex.org/A5085609478"],"corresponding_institution_ids":["https://openalex.org/I106785703","https://openalex.org/I125989756","https://openalex.org/I1294671590","https://openalex.org/I153845743","https://openalex.org/I4210101348","https://openalex.org/I4210149092","https://openalex.org/I899635006"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":4.1243,"has_fulltext":false,"cited_by_count":75,"citation_normalized_percentile":{"value":0.95447275,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"35","issue":"16","first_page":"2801","last_page":"2808"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9563999772071838,"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":0.9563999772071838,"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":0.025599999353289604,"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":0.00839999970048666,"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/orientation","display_name":"Orientation (vector space)","score":0.6936061382293701},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5919151306152344},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5537984371185303},{"id":"https://openalex.org/keywords/quality-assessment","display_name":"Quality assessment","score":0.4977257549762726},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.49364173412323},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3408679962158203},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.24147561192512512},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2078951597213745},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.14245718717575073},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.1352786123752594},{"id":"https://openalex.org/keywords/external-quality-assessment","display_name":"External quality assessment","score":0.13221874833106995},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.1128973662853241},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.11114466190338135},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.0937415361404419}],"concepts":[{"id":"https://openalex.org/C16345878","wikidata":"https://www.wikidata.org/wiki/Q107472979","display_name":"Orientation (vector space)","level":2,"score":0.6936061382293701},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5919151306152344},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5537984371185303},{"id":"https://openalex.org/C3020001037","wikidata":"https://www.wikidata.org/wiki/Q836575","display_name":"Quality assessment","level":3,"score":0.4977257549762726},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.49364173412323},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3408679962158203},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.24147561192512512},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2078951597213745},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.14245718717575073},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1352786123752594},{"id":"https://openalex.org/C2778618615","wikidata":"https://www.wikidata.org/wiki/Q4008393","display_name":"External quality assessment","level":2,"score":0.13221874833106995},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.1128973662853241},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.11114466190338135},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0937415361404419},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000078522","descriptor_name":"Grain Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000078522","descriptor_name":"Grain Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000078522","descriptor_name":"Grain Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"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}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/bty1037","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1037","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30590384","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30590384","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:www.research-collection.ethz.ch:20.500.11850/372049","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/372049","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics, 35 (16)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:HAL:hal-01971128v1","is_oa":true,"landing_page_url":"https://inria.hal.science/hal-01971128","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2019, 35 (16), pp.2801-2808. &#x27E8;10.1093/bioinformatics/bty1037&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"doi:10.3929/ethz-b-000372049","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000372049","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/372049","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/372049","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics, 35 (16)","raw_type":"info:eu-repo/semantics/article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G123004181","display_name":null,"funder_award_id":"ANR\u201015\u2010CE11\u20100029\u201003","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G325687231","display_name":"New light-driven channels and transporters for optogenetics","funder_award_id":"ANR-15-CE11-0029","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G4338236773","display_name":null,"funder_award_id":"RFMEFI58715X0011","funder_id":"https://openalex.org/F4320321912","funder_display_name":"Ministry of Education and Science of the Russian Federation"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320321912","display_name":"Ministry of Education and Science of the Russian Federation","ror":"https://ror.org/00ghqgy32"},{"id":"https://openalex.org/F4320324442","display_name":"Skolkovo Institute of Science and Technology","ror":"https://ror.org/03f9nc143"},{"id":"https://openalex.org/F4320330091","display_name":"Moscow Institute of Physics and Technology","ror":"https://ror.org/00v0z9322"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W1492653389","https://openalex.org/W1567512734","https://openalex.org/W1920924179","https://openalex.org/W2034562813","https://openalex.org/W2042992947","https://openalex.org/W2047221353","https://openalex.org/W2065886485","https://openalex.org/W2082629797","https://openalex.org/W2093813380","https://openalex.org/W2106648157","https://openalex.org/W2110483430","https://openalex.org/W2117163574","https://openalex.org/W2122825543","https://openalex.org/W2123085274","https://openalex.org/W2135046866","https://openalex.org/W2146189748","https://openalex.org/W2161151688","https://openalex.org/W2385735394","https://openalex.org/W2413334978","https://openalex.org/W2418704427","https://openalex.org/W2604474471","https://openalex.org/W2609811411","https://openalex.org/W2609870844","https://openalex.org/W2613328886","https://openalex.org/W2616930327","https://openalex.org/W3030176383","https://openalex.org/W4301041382"],"related_works":["https://openalex.org/W2393063995","https://openalex.org/W4324057335","https://openalex.org/W2361498295","https://openalex.org/W2602550804","https://openalex.org/W2282100885","https://openalex.org/W2313810484","https://openalex.org/W2395963095","https://openalex.org/W2387184052","https://openalex.org/W1963988314","https://openalex.org/W1924500548"],"abstract_inverted_index":{"MOTIVATION:":[0],"Protein":[1],"quality":[2],"assessment":[3,35],"(QA)":[4],"is":[5,147,169,178,231],"a":[6,13,42,47,99,137],"crucial":[7],"element":[8],"of":[9,53,69,93,140,149,185],"protein":[10,27,116,127,141,186,196,200],"structure":[11],"prediction,":[12],"fundamental":[14],"and":[15,118,165,176,198,218,229,236,241],"yet":[16],"open":[17],"problem":[18],"in":[19,227],"structural":[20,155],"bioinformatics.":[21],"QA":[22,79,102,211],"aims":[23],"at":[24,234,249],"ranking":[25],"predicted":[26],"models":[28],"to":[29,124,153,173,181,204,208],"select":[30],"the":[31,67,91,114],"best":[32],"candidates.":[33],"The":[34,55,106,129,143,223],"can":[36,58,89,121,190],"be":[37,122,192],"performed":[38],"based":[39],"either":[40],"on":[41,46,66,213,238],"single":[43],"model":[44],"or":[45],"consensus":[48],"derived":[49],"from":[50,136],"an":[51,82],"ensemble":[52],"models.":[54,95,128,142],"latter":[56],"strategy":[57],"yield":[59],"very":[60],"high":[61],"performance":[62,207],"but":[63],"substantially":[64],"depends":[65],"pool":[68],"available":[70,233,248],"candidate":[71,94],"models,":[72],"which":[73],"limits":[74],"its":[75,133],"applicability.":[76],"Hence,":[77],"single-model":[78,101,210],"methods":[80,212],"remain":[81],"important":[83],"research":[84],"target,":[85],"also":[86,191],"because":[87],"they":[88],"assist":[90],"sampling":[92],"RESULTS:":[96],"We":[97],"present":[98],"novel":[100],"method":[103,111,131],"called":[104],"SBROD.":[105],"SBROD":[107,144,202],"(Smooth":[108],"Backbone-Reliant":[109],"Orientation-Dependent)":[110],"uses":[112],"only":[113],"backbone":[115,161],"conformation,":[117],"hence":[119],"it":[120,189],"applied":[123],"scoring":[125,134,145],"coarse-grained":[126,195],"proposed":[130],"deduces":[132],"function":[135,146],"training":[138],"set":[139],"composed":[148],"four":[150],"terms":[151],"related":[152],"different":[154],"features:":[156],"residue-residue":[157],"orientations,":[158],"contacts":[159],"between":[160],"atoms,":[162],"hydrogen":[163],"bonding":[164],"solvent-solute":[166],"interactions.":[167],"It":[168],"smooth":[170],"with":[171],"respect":[172],"atomic":[174],"coordinates":[175],"thus":[177],"potentially":[179],"applicable":[180],"continuous":[182],"gradient-based":[183],"optimization":[184],"conformations.":[187],"Furthermore,":[188],"used":[193],"for":[194],"modeling":[197],"computational":[199],"design.":[201],"proved":[203],"achieve":[205],"similar":[206],"state-of-the-art":[209],"diverse":[214],"datasets":[215],"(CASP11,":[216],"CASP12":[217],"MOULDER).":[219],"AVAILABILITY":[220],"AND":[221],"IMPLEMENTATION:":[222],"standalone":[224],"application":[225],"implemented":[226],"C++":[228],"Python":[230],"freely":[232],"https://gitlab.inria.fr/grudinin/sbrod":[235],"supported":[237],"Linux,":[239],"MacOS":[240],"Windows.":[242],"SUPPLEMENTARY":[243],"INFORMATION:":[244],"Supplementary":[245],"data":[246],"are":[247],"Bioinformatics":[250],"online.":[251]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":22},{"year":2020,"cited_by_count":19},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
