{"id":"https://openalex.org/W2146084306","doi":"https://doi.org/10.1093/bioinformatics/btr350","title":"Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates","display_name":"Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and corresponding native properties of templates","publication_year":2011,"publication_date":"2011-06-11","ids":{"openalex":"https://openalex.org/W2146084306","doi":"https://doi.org/10.1093/bioinformatics/btr350","mag":"2146084306","pmid":"https://pubmed.ncbi.nlm.nih.gov/21666270"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btr350","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr350","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","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023539493","display_name":"Yuedong Yang","orcid":"https://orcid.org/0000-0002-6782-2813"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yuedong Yang","raw_affiliation_strings":["1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA","institution_ids":["https://openalex.org/I55769427","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069081626","display_name":"Eshel Faraggi","orcid":"https://orcid.org/0000-0001-5629-4800"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eshel Faraggi","raw_affiliation_strings":["1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA","institution_ids":["https://openalex.org/I55769427","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029051152","display_name":"Huiying Zhao","orcid":"https://orcid.org/0000-0001-9134-536X"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Huiying Zhao","raw_affiliation_strings":["1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA","institution_ids":["https://openalex.org/I55769427","https://openalex.org/I4394709130"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032724151","display_name":"Yaoqi Zhou","orcid":"https://orcid.org/0000-0002-9958-5699"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yaoqi Zhou","raw_affiliation_strings":["1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, Indiana University Purdue University, Indianapolis, IN 46202 and 2Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN 46202, USA","institution_ids":["https://openalex.org/I55769427","https://openalex.org/I4394709130"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5023539493"],"corresponding_institution_ids":["https://openalex.org/I4394709130","https://openalex.org/I55769427"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":9.7103,"has_fulltext":false,"cited_by_count":334,"citation_normalized_percentile":{"value":0.98825741,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":100},"biblio":{"volume":"27","issue":"15","first_page":"2076","last_page":"2082"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.892300009727478,"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":0.892300009727478,"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":0.06030000001192093,"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":0.010099999606609344,"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/casp","display_name":"CASP","score":0.9131981134414673},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.8257970809936523},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7379747629165649},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.6407456398010254},{"id":"https://openalex.org/keywords/fold","display_name":"Fold (higher-order function)","score":0.5859287977218628},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5448434948921204},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.4569545090198517},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4456574618816376},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39938491582870483},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38137370347976685},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3289206624031067},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.2868069112300873},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.10245350003242493}],"concepts":[{"id":"https://openalex.org/C66153294","wikidata":"https://www.wikidata.org/wiki/Q899291","display_name":"CASP","level":4,"score":0.9131981134414673},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.8257970809936523},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7379747629165649},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.6407456398010254},{"id":"https://openalex.org/C53942344","wikidata":"https://www.wikidata.org/wiki/Q951651","display_name":"Fold (higher-order function)","level":2,"score":0.5859287977218628},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5448434948921204},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.4569545090198517},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4456574618816376},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39938491582870483},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38137370347976685},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3289206624031067},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.2868069112300873},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.10245350003242493},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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":"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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","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":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","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":true},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","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":true},{"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":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btr350","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr350","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:21666270","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21666270","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:espace.library.uq.edu.au:UQ:70bb2ec","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402388","display_name":"Queensland's institutional digital repository (The University of Queensland)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I165143802","host_organization_name":"The University of Queensland","host_organization_lineage":["https://openalex.org/I165143802"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:2411716","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3137224","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:27/15/2076","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/27/15/2076","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"},{"id":"pmh:oai:research-repository.griffith.edu.au:10072/56124","is_oa":false,"landing_page_url":"http://hdl.handle.net/10072/56124","pdf_url":null,"source":{"id":"https://openalex.org/S4306402548","display_name":"Griffith Research Online (Griffith University, Queensland, Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I11701301","host_organization_name":"Griffith University","host_organization_lineage":["https://openalex.org/I11701301"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":53,"referenced_works":["https://openalex.org/W1578951231","https://openalex.org/W1963726977","https://openalex.org/W1978304263","https://openalex.org/W1980120676","https://openalex.org/W1981132436","https://openalex.org/W1991538681","https://openalex.org/W1996051469","https://openalex.org/W1996357466","https://openalex.org/W2004228538","https://openalex.org/W2008708467","https://openalex.org/W2009502487","https://openalex.org/W2017699309","https://openalex.org/W2024035237","https://openalex.org/W2051969447","https://openalex.org/W2066142272","https://openalex.org/W2066507577","https://openalex.org/W2082667898","https://openalex.org/W2083445888","https://openalex.org/W2084131216","https://openalex.org/W2085277871","https://openalex.org/W2087064593","https://openalex.org/W2092920038","https://openalex.org/W2093591760","https://openalex.org/W2096979765","https://openalex.org/W2102245393","https://openalex.org/W2105099387","https://openalex.org/W2106868489","https://openalex.org/W2112284439","https://openalex.org/W2115864800","https://openalex.org/W2119902292","https://openalex.org/W2120251063","https://openalex.org/W2121125726","https://openalex.org/W2125677968","https://openalex.org/W2133812171","https://openalex.org/W2134156588","https://openalex.org/W2139279375","https://openalex.org/W2142997865","https://openalex.org/W2143233657","https://openalex.org/W2144357990","https://openalex.org/W2145087978","https://openalex.org/W2145149019","https://openalex.org/W2145541064","https://openalex.org/W2153187042","https://openalex.org/W2153193090","https://openalex.org/W2157938277","https://openalex.org/W2158714788","https://openalex.org/W2163000619","https://openalex.org/W2164843630","https://openalex.org/W2168337765","https://openalex.org/W2170120409","https://openalex.org/W2232801722","https://openalex.org/W2402250173","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2411847509","https://openalex.org/W2411998238","https://openalex.org/W2155233650","https://openalex.org/W3198923619","https://openalex.org/W2093959518","https://openalex.org/W2334085108","https://openalex.org/W3199799076","https://openalex.org/W2561391236","https://openalex.org/W2147472674","https://openalex.org/W3199104097"],"abstract_inverted_index":{"MOTIVATION:":[0],"In":[1],"recent":[2],"years,":[3],"development":[4],"of":[5,26,59,119],"a":[6,18,37,149],"single-method":[7,38,122],"fold-recognition":[8],"server":[9,151],"lags":[10],"behind":[11],"consensus":[12,20],"and":[13,50,65,86,92,111,133],"multiple":[14,131],"template":[15],"techniques.":[16,125],"However,":[17],"good":[19],"prediction":[21,58],"relies":[22],"on":[23],"the":[24,46,52,79,120],"accuracy":[25],"individual":[27],"methods.":[28],"This":[29],"article":[30],"reports":[31],"our":[32],"efforts":[33],"to":[34,104],"further":[35,127,140],"improve":[36,141],"fold":[39,90,123],"recognition":[40,124],"technique":[41],"called":[42,74],"SPARKS":[43],"by":[44],"changing":[45],"alignment":[47,83],"scoring":[48],"function":[49],"incorporating":[51,130],"SPINE-X":[53],"techniques":[54,107],"that":[55,115,129],"make":[56],"improved":[57],"secondary":[60],"structure,":[61],"backbone":[62],"torsion":[63],"angle":[64],"solvent":[66],"accessible":[67],"surface":[68],"area.":[69],"RESULTS:":[70],"The":[71,100,144],"new":[72],"method":[73,101,145],"SPARKS-X":[75,116,150],"was":[76],"tested":[77],"with":[78],"SALIGN":[80],"benchmark":[81],"for":[82,89,97],"accuracy,":[84],"Lindahl":[85],"SCOP":[87],"benchmarks":[88],"recognition,":[91],"CASP":[93],"9":[94],"blind":[95],"test":[96],"structure":[98],"prediction.":[99],"is":[102,117,146],"compared":[103],"several":[105],"state-of-the-art":[106],"such":[108],"as":[109,148],"HHPRED":[110],"BoostThreader.":[112],"Results":[113],"show":[114],"one":[118],"best":[121],"We":[126],"note":[128],"templates":[132],"refinement":[134],"in":[135],"model":[136],"building":[137],"will":[138],"likely":[139],"SPARKS-X.":[142],"AVAILABILITY:":[143],"available":[147],"at":[152],"http://sparks.informatics.iupui.edu/":[153]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":15},{"year":2022,"cited_by_count":22},{"year":2021,"cited_by_count":29},{"year":2020,"cited_by_count":32},{"year":2019,"cited_by_count":32},{"year":2018,"cited_by_count":24},{"year":2017,"cited_by_count":25},{"year":2016,"cited_by_count":26},{"year":2015,"cited_by_count":30},{"year":2014,"cited_by_count":37},{"year":2013,"cited_by_count":23},{"year":2012,"cited_by_count":10}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}