{"id":"https://openalex.org/W1529156277","doi":"https://doi.org/10.1007/978-3-642-02008-7_5","title":"A Probabilistic Graphical Model for Ab Initio Folding","display_name":"A Probabilistic Graphical Model for Ab Initio Folding","publication_year":2009,"publication_date":"2009-01-01","ids":{"openalex":"https://openalex.org/W1529156277","doi":"https://doi.org/10.1007/978-3-642-02008-7_5","mag":"1529156277","pmid":"https://pubmed.ncbi.nlm.nih.gov/23459639"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-642-02008-7_5","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-642-02008-7_5","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3583211","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073659320","display_name":"Feng Zhao","orcid":"https://orcid.org/0000-0001-7205-3302"},"institutions":[{"id":"https://openalex.org/I160992636","display_name":"Toyota Technological Institute at Chicago","ror":"https://ror.org/02sn5gb64","country_code":"US","type":"education","lineage":["https://openalex.org/I160992636"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Feng Zhao","raw_affiliation_strings":["Toyota Technological Institute at Chicago, Chicago, IL 60637","Toyota Technological Institute at Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Toyota Technological Institute at Chicago, Chicago, IL 60637","institution_ids":["https://openalex.org/I160992636"]},{"raw_affiliation_string":"Toyota Technological Institute at Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I160992636"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101545679","display_name":"Jian Peng","orcid":"https://orcid.org/0000-0003-4269-4189"},"institutions":[{"id":"https://openalex.org/I160992636","display_name":"Toyota Technological Institute at Chicago","ror":"https://ror.org/02sn5gb64","country_code":"US","type":"education","lineage":["https://openalex.org/I160992636"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jian Peng","raw_affiliation_strings":["Toyota Technological Institute at Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Toyota Technological Institute at Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I160992636"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010815947","display_name":"Joe DeBartolo","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joe DeBartolo","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, the University of Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, the University of Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052757593","display_name":"Karl F. Freed","orcid":"https://orcid.org/0000-0001-6240-2599"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Karl F. Freed","raw_affiliation_strings":["Department of Chemistry, the University of Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry, the University of Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074480364","display_name":"Tobin R. Sosnick","orcid":"https://orcid.org/0000-0002-2871-7244"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tobin R. Sosnick","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, the University of Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, the University of Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019398608","display_name":"Jinbo Xu","orcid":"https://orcid.org/0000-0001-7111-4839"},"institutions":[{"id":"https://openalex.org/I160992636","display_name":"Toyota Technological Institute at Chicago","ror":"https://ror.org/02sn5gb64","country_code":"US","type":"education","lineage":["https://openalex.org/I160992636"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jinbo Xu","raw_affiliation_strings":["Toyota Technological Institute at Chicago, Chicago, IL 60637, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Toyota Technological Institute at Chicago, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I160992636"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5073659320"],"corresponding_institution_ids":["https://openalex.org/I160992636"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":4.1809,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.94023669,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"5541","issue":null,"first_page":"59","last_page":"73"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9976999759674072,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9966999888420105,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-folding","display_name":"Protein folding","score":0.7011792659759521},{"id":"https://openalex.org/keywords/graphical-model","display_name":"Graphical model","score":0.6909158229827881},{"id":"https://openalex.org/keywords/ab-initio","display_name":"Ab initio","score":0.6355454325675964},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.5608422756195068},{"id":"https://openalex.org/keywords/conditional-random-field","display_name":"Conditional random field","score":0.5536693334579468},{"id":"https://openalex.org/keywords/folding","display_name":"Folding (DSP implementation)","score":0.5114957094192505},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4231318533420563},{"id":"https://openalex.org/keywords/lattice","display_name":"Lattice (music)","score":0.4208929240703583},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.4207509160041809},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4056170582771301},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.3821139931678772},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.37273216247558594},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.34919825196266174},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.27487343549728394},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.23089012503623962},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1941750943660736},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13316115736961365}],"concepts":[{"id":"https://openalex.org/C204328495","wikidata":"https://www.wikidata.org/wiki/Q847556","display_name":"Protein folding","level":2,"score":0.7011792659759521},{"id":"https://openalex.org/C155846161","wikidata":"https://www.wikidata.org/wiki/Q1143367","display_name":"Graphical model","level":2,"score":0.6909158229827881},{"id":"https://openalex.org/C2781442258","wikidata":"https://www.wikidata.org/wiki/Q46310","display_name":"Ab initio","level":2,"score":0.6355454325675964},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.5608422756195068},{"id":"https://openalex.org/C152565575","wikidata":"https://www.wikidata.org/wiki/Q1124538","display_name":"Conditional random field","level":2,"score":0.5536693334579468},{"id":"https://openalex.org/C2776545253","wikidata":"https://www.wikidata.org/wiki/Q5464292","display_name":"Folding (DSP implementation)","level":2,"score":0.5114957094192505},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4231318533420563},{"id":"https://openalex.org/C2781204021","wikidata":"https://www.wikidata.org/wiki/Q6497091","display_name":"Lattice (music)","level":2,"score":0.4208929240703583},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.4207509160041809},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4056170582771301},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3821139931678772},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.37273216247558594},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.34919825196266174},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.27487343549728394},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.23089012503623962},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1941750943660736},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13316115736961365},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1007/978-3-642-02008-7_5","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-642-02008-7_5","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmid:23459639","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23459639","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":"Research in computational molecular biology : ... Annual International Conference, RECOMB ... : proceedings. RECOMB (Conference : 2005- )","raw_type":null},{"id":"pmh:oai:europepmc.org:2579920","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3583211","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:3583211","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3583211","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":"Res Comput Mol Biol","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:3583211","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3583211","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":"Res Comput Mol Biol","raw_type":"Text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":44,"referenced_works":["https://openalex.org/W1491063910","https://openalex.org/W1508596864","https://openalex.org/W1606011614","https://openalex.org/W1970197953","https://openalex.org/W1982647060","https://openalex.org/W1985225270","https://openalex.org/W1997075303","https://openalex.org/W1999613945","https://openalex.org/W2013507130","https://openalex.org/W2020230520","https://openalex.org/W2026501582","https://openalex.org/W2026648849","https://openalex.org/W2034361607","https://openalex.org/W2037603210","https://openalex.org/W2043304335","https://openalex.org/W2048238393","https://openalex.org/W2056568469","https://openalex.org/W2062957518","https://openalex.org/W2069088519","https://openalex.org/W2069982947","https://openalex.org/W2073758233","https://openalex.org/W2074421756","https://openalex.org/W2076916984","https://openalex.org/W2089035513","https://openalex.org/W2102245393","https://openalex.org/W2106154817","https://openalex.org/W2114441129","https://openalex.org/W2117236240","https://openalex.org/W2121876872","https://openalex.org/W2124371326","https://openalex.org/W2133578061","https://openalex.org/W2135484509","https://openalex.org/W2139281871","https://openalex.org/W2153153865","https://openalex.org/W2154106236","https://openalex.org/W2155039674","https://openalex.org/W2156975940","https://openalex.org/W2166912610","https://openalex.org/W2185715143","https://openalex.org/W2573216930","https://openalex.org/W3021735434","https://openalex.org/W3200464911","https://openalex.org/W3201413583","https://openalex.org/W4229926969"],"related_works":["https://openalex.org/W1966538595","https://openalex.org/W3044593510","https://openalex.org/W4210958064","https://openalex.org/W2788822131","https://openalex.org/W2198994548","https://openalex.org/W1578424296","https://openalex.org/W1529156277","https://openalex.org/W2005752581","https://openalex.org/W1971353143","https://openalex.org/W2945263970"],"abstract_inverted_index":null,"counts_by_year":[{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-28T14:05:53.105641","created_date":"2025-10-10T00:00:00"}
