{"id":"https://openalex.org/W2063459844","doi":"https://doi.org/10.1145/2739482.2768438","title":"NK Landscape Instances Mimicking the Protein Inverse Folding Problem Towards Future Benchmarks","display_name":"NK Landscape Instances Mimicking the Protein Inverse Folding Problem Towards Future Benchmarks","publication_year":2015,"publication_date":"2015-07-10","ids":{"openalex":"https://openalex.org/W2063459844","doi":"https://doi.org/10.1145/2739482.2768438","mag":"2063459844"},"language":"en","primary_location":{"id":"doi:10.1145/2739482.2768438","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2739482.2768438","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":"preprint","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/A5063673744","display_name":"Sune S. Nielsen","orcid":"https://orcid.org/0000-0002-0349-9199"},"institutions":[{"id":"https://openalex.org/I186903577","display_name":"University of Luxembourg","ror":"https://ror.org/036x5ad56","country_code":"LU","type":"education","lineage":["https://openalex.org/I186903577"]},{"id":"https://openalex.org/I4210134190","display_name":"Recherches Scientifiques Luxembourg","ror":"https://ror.org/0333e3w09","country_code":"LU","type":"facility","lineage":["https://openalex.org/I4210134190"]}],"countries":["LU"],"is_corresponding":true,"raw_author_name":"Sune S. Nielsen","raw_affiliation_strings":["University of Luxembourg, Luxembourg, Luxembourg","FSTC - Faculty of Science, Technology and Communication [Luxembourg] (Campus Kirchberg\r\n6, rue Richard Coudenhove-Kalergi\r\nL-1359 Luxembourg - Luxembourg)"],"affiliations":[{"raw_affiliation_string":"University of Luxembourg, Luxembourg, Luxembourg","institution_ids":["https://openalex.org/I186903577"]},{"raw_affiliation_string":"FSTC - Faculty of Science, Technology and Communication [Luxembourg] (Campus Kirchberg\r\n6, rue Richard Coudenhove-Kalergi\r\nL-1359 Luxembourg - Luxembourg)","institution_ids":["https://openalex.org/I4210134190"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107678280","display_name":"Gr\u00e9goire Danoy","orcid":"https://orcid.org/0000-0001-9419-4210"},"institutions":[{"id":"https://openalex.org/I186903577","display_name":"University of Luxembourg","ror":"https://ror.org/036x5ad56","country_code":"LU","type":"education","lineage":["https://openalex.org/I186903577"]},{"id":"https://openalex.org/I4210134190","display_name":"Recherches Scientifiques Luxembourg","ror":"https://ror.org/0333e3w09","country_code":"LU","type":"facility","lineage":["https://openalex.org/I4210134190"]}],"countries":["LU"],"is_corresponding":false,"raw_author_name":"Gr\u00e9goire Danoy","raw_affiliation_strings":["University of Luxembourg, Luxembourg, Luxembourg","CSC - Computer Science and Communications Research Unit [Luxembourg] (Campus Kirchberg 6, rue Richard Coudenhove-Kalergi L-1359 Luxembourg LUXEMBOURG - Luxembourg)"],"affiliations":[{"raw_affiliation_string":"University of Luxembourg, Luxembourg, Luxembourg","institution_ids":["https://openalex.org/I186903577"]},{"raw_affiliation_string":"CSC - Computer Science and Communications Research Unit [Luxembourg] (Campus Kirchberg 6, rue Richard Coudenhove-Kalergi L-1359 Luxembourg LUXEMBOURG - Luxembourg)","institution_ids":["https://openalex.org/I4210134190"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058311932","display_name":"Pascal Bouvry","orcid":"https://orcid.org/0000-0001-9338-2834"},"institutions":[{"id":"https://openalex.org/I186903577","display_name":"University of Luxembourg","ror":"https://ror.org/036x5ad56","country_code":"LU","type":"education","lineage":["https://openalex.org/I186903577"]},{"id":"https://openalex.org/I2279609970","display_name":"Universit\u00e9 de Lille","ror":"https://ror.org/02kzqn938","country_code":"FR","type":"education","lineage":["https://openalex.org/I2279609970"]},{"id":"https://openalex.org/I4210115519","display_name":"Centre de Recherche en Informatique","ror":"https://ror.org/020cdve92","country_code":"FR","type":"facility","lineage":["https://openalex.org/I190752583","https://openalex.org/I2746051580","https://openalex.org/I4210091621","https://openalex.org/I4210115519","https://openalex.org/I70768539"]},{"id":"https://openalex.org/I4210133187","display_name":"Dolphin Design (France)","ror":"https://ror.org/03bvw7q76","country_code":"FR","type":"company","lineage":["https://openalex.org/I4210133187"]}],"countries":["FR","LU"],"is_corresponding":false,"raw_author_name":"Pascal Bouvry","raw_affiliation_strings":["University of Luxembourg, Luxembourg, Luxembourg","CRIStAL - Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 (Universit\u00e9 de Lille - Campus scientifique - B\u00e2timent ESPRIT - Avenue Henri Poincar\u00e9 - 59655 Villeneuve d\u2019Ascq - France)","DOLPHIN - Parallel Cooperative Multi-criteria Optimization (France)"],"affiliations":[{"raw_affiliation_string":"University of Luxembourg, Luxembourg, Luxembourg","institution_ids":["https://openalex.org/I186903577"]},{"raw_affiliation_string":"CRIStAL - Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 (Universit\u00e9 de Lille - Campus scientifique - B\u00e2timent ESPRIT - Avenue Henri Poincar\u00e9 - 59655 Villeneuve d\u2019Ascq - France)","institution_ids":["https://openalex.org/I4210115519","https://openalex.org/I2279609970"]},{"raw_affiliation_string":"DOLPHIN - Parallel Cooperative Multi-criteria Optimization (France)","institution_ids":["https://openalex.org/I4210133187"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5107857046","display_name":"El\u2010Ghazali Talbi","orcid":null},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en sciences et technologies du num\u00e9rique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"government","lineage":["https://openalex.org/I1326498283"]},{"id":"https://openalex.org/I186903577","display_name":"University of Luxembourg","ror":"https://ror.org/036x5ad56","country_code":"LU","type":"education","lineage":["https://openalex.org/I186903577"]},{"id":"https://openalex.org/I4210138412","display_name":"Centre Inria de l'Universit\u00e9 de Lille","ror":"https://ror.org/04eej9726","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1326498283","https://openalex.org/I4210138412"]}],"countries":["FR","LU"],"is_corresponding":false,"raw_author_name":"El-Ghazali Talbi","raw_affiliation_strings":["INRIA Lille Nord Europe, Villeneuve d'Ascq, France","University of Luxembourg [Luxembourg] (Campus Kirchberg\r\n6, rue Richard Coudenhove-Kalergi\r\nL-1359 Luxembourg\r\n\r\nCampus de Limpertsberg\r\n162a, avenue de la Fa\u00efencerie\r\nL-1511 Luxembourg\r\n\r\nCampus de Belval\r\n2, avenue de l'Universit\u00e9\r\nL-4365 Esch-sur-Alzette - Luxembourg)"],"affiliations":[{"raw_affiliation_string":"INRIA Lille Nord Europe, Villeneuve d'Ascq, France","institution_ids":["https://openalex.org/I4210138412","https://openalex.org/I1326498283"]},{"raw_affiliation_string":"University of Luxembourg [Luxembourg] (Campus Kirchberg\r\n6, rue Richard Coudenhove-Kalergi\r\nL-1359 Luxembourg\r\n\r\nCampus de Limpertsberg\r\n162a, avenue de la Fa\u00efencerie\r\nL-1511 Luxembourg\r\n\r\nCampus de Belval\r\n2, avenue de l'Universit\u00e9\r\nL-4365 Esch-sur-Alzette - Luxembourg)","institution_ids":["https://openalex.org/I186903577"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5063673744"],"corresponding_institution_ids":["https://openalex.org/I186903577","https://openalex.org/I4210134190"],"apc_list":null,"apc_paid":null,"fwci":0.5171,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.77714289,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"915","last_page":"921"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10494","display_name":"Plant Virus Research Studies","score":0.9580000042915344,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10494","display_name":"Plant Virus Research Studies","score":0.9580000042915344,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9550999999046326,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9003000259399414,"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/benchmark","display_name":"Benchmark (surveying)","score":0.7714203000068665},{"id":"https://openalex.org/keywords/convergence","display_name":"Convergence (economics)","score":0.6262585520744324},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6131947040557861},{"id":"https://openalex.org/keywords/fitness-landscape","display_name":"Fitness landscape","score":0.5872519016265869},{"id":"https://openalex.org/keywords/folding","display_name":"Folding (DSP implementation)","score":0.5544822216033936},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5357075929641724},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5091909766197205},{"id":"https://openalex.org/keywords/inverse","display_name":"Inverse","score":0.4912990927696228},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.46474429965019226},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.36986592411994934},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.34263619780540466},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.2324877679347992},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12922361493110657},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10904619097709656}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7714203000068665},{"id":"https://openalex.org/C2777303404","wikidata":"https://www.wikidata.org/wiki/Q759757","display_name":"Convergence (economics)","level":2,"score":0.6262585520744324},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6131947040557861},{"id":"https://openalex.org/C91852762","wikidata":"https://www.wikidata.org/wiki/Q3307742","display_name":"Fitness landscape","level":3,"score":0.5872519016265869},{"id":"https://openalex.org/C2776545253","wikidata":"https://www.wikidata.org/wiki/Q5464292","display_name":"Folding (DSP implementation)","level":2,"score":0.5544822216033936},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5357075929641724},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5091909766197205},{"id":"https://openalex.org/C207467116","wikidata":"https://www.wikidata.org/wiki/Q4385666","display_name":"Inverse","level":2,"score":0.4912990927696228},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.46474429965019226},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.36986592411994934},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.34263619780540466},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2324877679347992},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12922361493110657},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10904619097709656},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","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/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","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},{"id":"https://openalex.org/C50522688","wikidata":"https://www.wikidata.org/wiki/Q189833","display_name":"Economic growth","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","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}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/2739482.2768438","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2739482.2768438","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"},{"id":"pmh:oai:HAL:hal-01249485v1","is_oa":false,"landing_page_url":"https://inria.hal.science/hal-01249485","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"GECCO 2015 - Genetic and Evolutionary Computation Conference, Jul 2015, Madrid, Spain. &#x27E8;10.1145/2739482.2768438&#x27E9;","raw_type":"Conference papers"},{"id":"pmh:oai:orbilu.uni.lu:10993/25028","is_oa":false,"landing_page_url":"https://orbilu.uni.lu/handle/10993/25028","pdf_url":null,"source":{"id":"https://openalex.org/S4306401815","display_name":"Open Repository and Bibliography (University of Luxembourg)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I186903577","host_organization_name":"University of Luxembourg","host_organization_lineage":["https://openalex.org/I186903577"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"GECCO Companion '15 Proceedings of the Companion Publication of the 2015 Annual Conference on Genetic and Evolutionary Computation (2015); The Genetic and Evolutionary Computation Conference (GECCO 2015), Madrid, Spain [ES], from 11-07-2015 to 12-07-2015","raw_type":"peer reviewed"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.5400000214576721,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G8354844567","display_name":null,"funder_award_id":"1356145","funder_id":"https://openalex.org/F4320321038","funder_display_name":"Fonds National de la Recherche Luxembourg"}],"funders":[{"id":"https://openalex.org/F4320321038","display_name":"Fonds National de la Recherche Luxembourg","ror":"https://ror.org/039z13y21"},{"id":"https://openalex.org/F4320321390","display_name":"Fonds De La Recherche Scientifique - FNRS","ror":"https://ror.org/03q83t159"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":8,"referenced_works":["https://openalex.org/W606488279","https://openalex.org/W1528706917","https://openalex.org/W1990297162","https://openalex.org/W2013136212","https://openalex.org/W2064164319","https://openalex.org/W2108020239","https://openalex.org/W4252684946","https://openalex.org/W4388252848"],"related_works":["https://openalex.org/W2378211422","https://openalex.org/W4321353415","https://openalex.org/W2745001401","https://openalex.org/W2130974462","https://openalex.org/W2028665553","https://openalex.org/W2086519370","https://openalex.org/W972276598","https://openalex.org/W2087343574","https://openalex.org/W4246352526","https://openalex.org/W2121910908"],"abstract_inverted_index":{"This":[0],"paper":[1],"introduces":[2],"two":[3],"new":[4,75],"nominal":[5],"NK":[6,76],"Landscape":[7],"model":[8,50,122],"instances":[9,51],"designed":[10],"to":[11,46,112,124,162],"mimic":[12],"the":[13,22,63,74,79,113,143,150,156,163],"properties":[14,41,98],"of":[15,54,65,84,119,149,155,159],"one":[16],"challenging":[17],"optimisation":[18],"problem":[19,40],"from":[20],"biology:":[21],"Inverse":[23],"Folding":[24],"Problem":[25],"(IFP),":[26],"here":[27],"focusing":[28],"on":[29,72],"a":[30,106,121,126],"simpler":[31],"secondary":[32],"structure":[33],"version.":[34],"Through":[35],"landscape":[36],"analysis":[37],"tests,":[38],"numerous":[39],"are":[42,99],"identified":[43],"and":[44,48,58,78,89,153],"used":[45],"parameterise":[47],"validate":[49],"in":[52,82,101,136],"terms":[53,83],"epistatic":[55],"links,":[56],"adaptive-":[57],"random":[59],"walk":[60],"characteristics.":[61,91],"Then":[62],"performance":[64],"different":[66],"Genetic":[67],"Algorithms":[68],"(GAs)":[69],"is":[70,93,123],"compared":[71,111],"both":[73],"Models":[77],"original":[80],"IFP,":[81],"population":[85],"diversity,":[86],"solution":[87,157],"quality":[88],"convergence":[90],"It":[92,139],"demonstrated":[94],"that":[95],"very":[96],"similar":[97],"captured":[100],"all":[102],"presented":[103],"tests":[104],"with":[105],"significantly":[107],"faster":[108],"evaluation":[109],"time":[110],"real":[114],"IFP.":[115,164],"The":[116],"future":[117],"purpose":[118],"such":[120],"provide":[125,142],"generic":[127],"benchmark":[128],"for":[129,145],"algorithms":[130],"targeting":[131],"protein":[132,137],"sequence":[133],"optimisation,":[134],"specifically":[135],"design.":[138],"may":[140],"also":[141],"foundation":[144],"more":[146],"in-depth":[147],"studies":[148],"size,":[151],"shape":[152],"characteristics":[154],"space":[158],"good":[160],"solutions":[161]},"counts_by_year":[{"year":2015,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
