{"id":"https://openalex.org/W2093897871","doi":"https://doi.org/10.1145/2739482.2768437","title":"Combination of Differential Evolution and Fragment-based Replacements for Protein Structure Prediction","display_name":"Combination of Differential Evolution and Fragment-based Replacements for Protein Structure Prediction","publication_year":2015,"publication_date":"2015-07-10","ids":{"openalex":"https://openalex.org/W2093897871","doi":"https://doi.org/10.1145/2739482.2768437","mag":"2093897871"},"language":"en","primary_location":{"id":"doi:10.1145/2739482.2768437","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2739482.2768437","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Companion Publication of the 2015 Annual Conference on Genetic and Evolutionary Computation","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5059664152","display_name":"Daniel Varela","orcid":"https://orcid.org/0000-0001-7799-0119"},"institutions":[{"id":"https://openalex.org/I11019714","display_name":"Universidade da Coru\u00f1a","ror":"https://ror.org/01qckj285","country_code":"ES","type":"education","lineage":["https://openalex.org/I11019714"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Daniel Varela","raw_affiliation_strings":["University of A Coru\u00f1a, A Coru\u00f1a, Spain"],"affiliations":[{"raw_affiliation_string":"University of A Coru\u00f1a, A Coru\u00f1a, Spain","institution_ids":["https://openalex.org/I11019714"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089427591","display_name":"Jos\u00e9 S\u00e1ntos","orcid":"https://orcid.org/0000-0002-4212-1367"},"institutions":[{"id":"https://openalex.org/I11019714","display_name":"Universidade da Coru\u00f1a","ror":"https://ror.org/01qckj285","country_code":"ES","type":"education","lineage":["https://openalex.org/I11019714"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Santos","raw_affiliation_strings":["University of A Coru\u00f1a, A Coru\u00f1a, Spain"],"affiliations":[{"raw_affiliation_string":"University of A Coru\u00f1a, A Coru\u00f1a, Spain","institution_ids":["https://openalex.org/I11019714"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5059664152"],"corresponding_institution_ids":["https://openalex.org/I11019714"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.05117005,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"911","last_page":"914"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.995199978351593,"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":0.995199978351593,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9901999831199646,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.989300012588501,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/fragment","display_name":"Fragment (logic)","score":0.8829341530799866},{"id":"https://openalex.org/keywords/initialization","display_name":"Initialization","score":0.8717964887619019},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.6489835977554321},{"id":"https://openalex.org/keywords/differential-evolution","display_name":"Differential evolution","score":0.6336998343467712},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.5741925835609436},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5147250294685364},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.5127118825912476},{"id":"https://openalex.org/keywords/ab-initio","display_name":"Ab initio","score":0.5076016187667847},{"id":"https://openalex.org/keywords/fragment-molecular-orbital","display_name":"Fragment molecular orbital","score":0.4534979462623596},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.44693997502326965},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4426421523094177},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.3960234522819519},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3595549464225769},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.235173761844635},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.20162495970726013},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1855544149875641},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17862597107887268},{"id":"https://openalex.org/keywords/stereochemistry","display_name":"Stereochemistry","score":0.08600974082946777},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.08333748579025269},{"id":"https://openalex.org/keywords/molecule","display_name":"Molecule","score":0.07345172762870789}],"concepts":[{"id":"https://openalex.org/C2776235265","wikidata":"https://www.wikidata.org/wiki/Q18392052","display_name":"Fragment (logic)","level":2,"score":0.8829341530799866},{"id":"https://openalex.org/C114466953","wikidata":"https://www.wikidata.org/wiki/Q6034165","display_name":"Initialization","level":2,"score":0.8717964887619019},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.6489835977554321},{"id":"https://openalex.org/C74750220","wikidata":"https://www.wikidata.org/wiki/Q2662197","display_name":"Differential evolution","level":2,"score":0.6336998343467712},{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.5741925835609436},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5147250294685364},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.5127118825912476},{"id":"https://openalex.org/C2781442258","wikidata":"https://www.wikidata.org/wiki/Q46310","display_name":"Ab initio","level":2,"score":0.5076016187667847},{"id":"https://openalex.org/C105302883","wikidata":"https://www.wikidata.org/wiki/Q5477685","display_name":"Fragment molecular orbital","level":4,"score":0.4534979462623596},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.44693997502326965},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4426421523094177},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3960234522819519},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3595549464225769},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.235173761844635},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.20162495970726013},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1855544149875641},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17862597107887268},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.08600974082946777},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.08333748579025269},{"id":"https://openalex.org/C32909587","wikidata":"https://www.wikidata.org/wiki/Q11369","display_name":"Molecule","level":2,"score":0.07345172762870789},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","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/C139358910","wikidata":"https://www.wikidata.org/wiki/Q725417","display_name":"Molecular orbital","level":3,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2739482.2768437","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2739482.2768437","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Companion Publication of the 2015 Annual Conference on Genetic and Evolutionary Computation","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.75,"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W194800985","https://openalex.org/W200248288","https://openalex.org/W600632748","https://openalex.org/W1548178570","https://openalex.org/W1595159159","https://openalex.org/W1879678483","https://openalex.org/W1974885083","https://openalex.org/W2026980998","https://openalex.org/W2034473365","https://openalex.org/W2035885031","https://openalex.org/W2045777307","https://openalex.org/W2060130346","https://openalex.org/W2072090246","https://openalex.org/W2101117034","https://openalex.org/W2144981983","https://openalex.org/W2154106236","https://openalex.org/W2156194072","https://openalex.org/W2468811940","https://openalex.org/W6644093070"],"related_works":["https://openalex.org/W3204184292","https://openalex.org/W3176564347","https://openalex.org/W1985458517","https://openalex.org/W2355833770","https://openalex.org/W2090630809","https://openalex.org/W3031039437","https://openalex.org/W183202219","https://openalex.org/W3095877357","https://openalex.org/W2155159626","https://openalex.org/W2944489523"],"abstract_inverted_index":{"In":[0],"this":[1],"work":[2],"Differential":[3],"Evolution":[4],"(DE)":[5],"was":[6,25],"combined":[7],"with":[8,19,83,87,90],"fragment":[9,61],"replacement":[10,62],"for":[11,32],"improving":[12],"the":[13,33,38,41,56,65,78],"search":[14,54,71],"of":[15,29,40,72],"protein":[16,74],"structure":[17],"conformations":[18,75],"minimum":[20],"energy.":[21],"The":[22],"Rosetta":[23],"environment":[24],"used,":[26],"employing":[27],"some":[28],"its":[30,47],"phases":[31],"ab":[34],"initio":[35],"prediction":[36],"in":[37,55],"initialization":[39],"genetic":[42],"population,":[43],"as":[44,46],"well":[45],"fragment-assembly":[48],"technique.":[49],"DE":[50,79],"provides":[51,68],"a":[52,69,88],"global":[53],"multimodal":[57],"energy":[58],"landscape":[59],"whereas":[60],"based":[63],"on":[64],"Monte-Carlo":[66],"procedure":[67],"useful":[70],"short":[73],"that":[76],"accelerates":[77],"search.":[80],"Initial":[81],"results":[82],"proteins":[84],"from":[85],"PDB":[86],"comparison":[89],"previous":[91],"works":[92],"are":[93],"provided.":[94]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}