{"id":"https://openalex.org/W2107253825","doi":"https://doi.org/10.1142/s0219720012420036","title":"RECURSIVE PROTEIN MODELING: A DIVIDE AND CONQUER STRATEGY FOR PROTEIN STRUCTURE PREDICTION AND ITS CASE STUDY IN CASP9","display_name":"RECURSIVE PROTEIN MODELING: A DIVIDE AND CONQUER STRATEGY FOR PROTEIN STRUCTURE PREDICTION AND ITS CASE STUDY IN CASP9","publication_year":2012,"publication_date":"2012-04-12","ids":{"openalex":"https://openalex.org/W2107253825","doi":"https://doi.org/10.1142/s0219720012420036","mag":"2107253825","pmid":"https://pubmed.ncbi.nlm.nih.gov/22809379"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720012420036","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720012420036","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3622867","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5044354277","display_name":"Jianlin Cheng","orcid":"https://orcid.org/0000-0003-0305-2853"},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"JIANLIN CHENG","raw_affiliation_strings":["Department of Computer Science, University of Missouri, Columbia, MO 65211, USA","Informatics Institute, University of Missouri, Columbia, MO 65211, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]},{"raw_affiliation_string":"Informatics Institute, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033383597","display_name":"Jesse Eickholt","orcid":"https://orcid.org/0000-0002-1764-1838"},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"JESSE EICKHOLT","raw_affiliation_strings":["Department of Computer Science, University of Missouri, Columbia, MO 65211, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100401128","display_name":"Zheng Wang","orcid":"https://orcid.org/0009-0005-6678-8106"},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"ZHENG WANG","raw_affiliation_strings":["Bond Life Science Center, University of Missouri, Columbia, MO 65211, USA","Department of Computer Science, University of Missouri, Columbia, MO 65211, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bond Life Science Center, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]},{"raw_affiliation_string":"Department of Computer Science, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100650157","display_name":"Xin Deng","orcid":"https://orcid.org/0000-0003-1257-694X"},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"XIN DENG","raw_affiliation_strings":["Department of Computer Science, University of Missouri, Columbia, MO 65211, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I76835614"],"apc_list":null,"apc_paid":null,"fwci":0.5374,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.66220463,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"10","issue":"03","first_page":"1242003","last_page":"1242003"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9983000159263611,"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/T10171","display_name":"Biofuel production and bioconversion","score":0.9882000088691711,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.8752282857894897},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7315130233764648},{"id":"https://openalex.org/keywords/casp","display_name":"CASP","score":0.7250661253929138},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.7186934947967529},{"id":"https://openalex.org/keywords/divide-and-conquer-algorithms","display_name":"Divide and conquer algorithms","score":0.5704156756401062},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.3949735164642334},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3928840160369873},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.37134966254234314},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.33403635025024414},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.33347567915916443},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.0935712456703186},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07428577542304993}],"concepts":[{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.8752282857894897},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7315130233764648},{"id":"https://openalex.org/C66153294","wikidata":"https://www.wikidata.org/wiki/Q899291","display_name":"CASP","level":4,"score":0.7250661253929138},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.7186934947967529},{"id":"https://openalex.org/C71559656","wikidata":"https://www.wikidata.org/wiki/Q671298","display_name":"Divide and conquer algorithms","level":2,"score":0.5704156756401062},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3949735164642334},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3928840160369873},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.37134966254234314},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.33403635025024414},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.33347567915916443},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0935712456703186},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07428577542304993},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","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":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","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":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","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":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1142/s0219720012420036","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720012420036","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:22809379","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22809379","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":"Journal of bioinformatics and computational biology","raw_type":null},{"id":"pmh:oai:europepmc.org:2624661","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3622867","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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3622867","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3622867","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Bioinform Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:3622867","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3622867","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Bioinform Comput Biol","raw_type":"Text"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.4000000059604645,"id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G4423017900","display_name":null,"funder_award_id":"R01GM093123","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G5108955164","display_name":null,"funder_award_id":"R01 GM093123","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W597566735","https://openalex.org/W1595347157","https://openalex.org/W1971627371","https://openalex.org/W1980120676","https://openalex.org/W2004275197","https://openalex.org/W2009144168","https://openalex.org/W2028368848","https://openalex.org/W2031721366","https://openalex.org/W2037312364","https://openalex.org/W2051811132","https://openalex.org/W2052112948","https://openalex.org/W2062123114","https://openalex.org/W2062693912","https://openalex.org/W2065283382","https://openalex.org/W2067484689","https://openalex.org/W2070783701","https://openalex.org/W2076539319","https://openalex.org/W2082667898","https://openalex.org/W2088828240","https://openalex.org/W2096004651","https://openalex.org/W2110483430","https://openalex.org/W2110890402","https://openalex.org/W2112507697","https://openalex.org/W2119550029","https://openalex.org/W2120230374","https://openalex.org/W2130479394","https://openalex.org/W2134504420","https://openalex.org/W2137604324","https://openalex.org/W2138755951","https://openalex.org/W2140244239","https://openalex.org/W2145268834","https://openalex.org/W2150434184","https://openalex.org/W2151831732","https://openalex.org/W2154106236","https://openalex.org/W2158714788","https://openalex.org/W2159155807","https://openalex.org/W2164886928","https://openalex.org/W2170471837","https://openalex.org/W2201713963","https://openalex.org/W3199104097","https://openalex.org/W4245051455"],"related_works":["https://openalex.org/W2946599741","https://openalex.org/W2147472674","https://openalex.org/W2561391236","https://openalex.org/W1888349473","https://openalex.org/W2136856901","https://openalex.org/W3165545667","https://openalex.org/W4225106352","https://openalex.org/W47248631","https://openalex.org/W3171039768","https://openalex.org/W2058542300"],"abstract_inverted_index":{"After":[0],"decades":[1],"of":[2,19,21,26,77,83,127,133,141,150,162,166,176,192],"research,":[3],"protein":[4,56,97,104,177,193],"structure":[5,50,178,194],"prediction":[6],"remains":[7],"a":[8,40,46,54,102,128,139],"very":[9],"challenging":[10],"problem.":[11],"In":[12],"order":[13],"to":[14,42,95,107,117,186],"address":[15],"the":[16,89,134,146,160,174,188],"different":[17],"levels":[18],"complexity":[20,175],"structural":[22],"modeling,":[23,69],"two":[24,90],"types":[25],"modeling":[27,29,36,105,115,143,163,170,179,185],"techniques--template-based":[28],"and":[30,109,113,122,157,180,183,190],"template-free":[31,114,123,184],"modeling--have":[32],"been":[33,92],"developed.":[34],"Template-based":[35],"can":[37,171],"often":[38],"generate":[39,75],"moderate-":[41],"high-resolution":[43],"model":[44,118],"when":[45],"similar,":[47],"homologous":[48],"template":[49,61],"is":[51],"found":[52],"for":[53,80,152],"query":[55],"but":[57],"fails":[58],"if":[59],"no":[60],"or":[62],"only":[63],"incorrect":[64],"templates":[65],"are":[66],"found.":[67],"Template-free":[68],"such":[70],"as":[71],"fragment-based":[72],"assembly,":[73],"may":[74],"models":[76],"moderate":[78],"resolution":[79],"small":[81],"proteins":[82],"low":[84],"topological":[85],"complexity.":[86],"Seldom":[87],"have":[88],"techniques":[91],"integrated":[93],"together":[94],"improve":[96,187],"modeling.":[98],"Here":[99],"we":[100],"develop":[101],"recursive":[103],"approach":[106,135],"selectively":[108],"collaboratively":[110],"apply":[111],"template-based":[112,182],"methods":[116],"template-covered":[119],"(i.e.":[120,124],"certain)":[121],"uncertain)":[125],"regions":[126],"protein.":[129],"A":[130],"preliminary":[131],"implementation":[132],"was":[136],"tested":[137],"on":[138],"number":[140],"hard":[142],"cases":[144],"during":[145],"9th":[147],"Critical":[148],"Assessment":[149],"Techniques":[151],"Protein":[153],"Structure":[154],"Prediction":[155],"(CASP9)":[156],"successfully":[158],"improved":[159],"quality":[161,189],"in":[164],"most":[165],"these":[167],"cases.":[168],"Recursive":[169],"significantly":[172],"reduce":[173],"integrate":[181],"efficiency":[191],"prediction.":[195]},"counts_by_year":[{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-26T08:34:08.712188","created_date":"2025-10-10T00:00:00"}