{"id":"https://openalex.org/W2483438189","doi":"https://doi.org/10.1145/2908812.2908858","title":"A Simulated Annealing Algorithm for Maximum Common Edge Subgraph Detection in Biological Networks","display_name":"A Simulated Annealing Algorithm for Maximum Common Edge Subgraph Detection in Biological Networks","publication_year":2016,"publication_date":"2016-07-20","ids":{"openalex":"https://openalex.org/W2483438189","doi":"https://doi.org/10.1145/2908812.2908858","mag":"2483438189"},"language":"en","primary_location":{"id":"doi:10.1145/2908812.2908858","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2908812.2908858","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Genetic and Evolutionary Computation Conference 2016","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/A5063433728","display_name":"Simon J. Larsen","orcid":"https://orcid.org/0000-0001-8076-5035"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":true,"raw_author_name":"Simon J. Larsen","raw_affiliation_strings":["University of Southern Denmark, Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087850947","display_name":"Frederik G. Alk\u00e6rsig","orcid":null},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Frederik G. Alk\u00e6rsig","raw_affiliation_strings":["University of Southern Denmark, Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011720560","display_name":"Henrik J. Ditzel","orcid":"https://orcid.org/0000-0003-3927-5135"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Henrik J. Ditzel","raw_affiliation_strings":["University of Southern Denmark, Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055656807","display_name":"Igor Juri\u0161ica","orcid":"https://orcid.org/0000-0002-2507-946X"},"institutions":[{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Igor Jurisica","raw_affiliation_strings":["Princess Margaret Cancer Centre, Toronto, Canada"],"affiliations":[{"raw_affiliation_string":"Princess Margaret Cancer Centre, Toronto, Canada","institution_ids":["https://openalex.org/I2802654988"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084541770","display_name":"Nicol\u00e1s Alcaraz","orcid":"https://orcid.org/0000-0003-0839-8423"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Nicolas Alcaraz","raw_affiliation_strings":["University of Southern Denmark, Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073222532","display_name":"Jan Baumbach","orcid":"https://orcid.org/0000-0002-0282-0462"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Jan Baumbach","raw_affiliation_strings":["University of Southern Denmark, Odense, Denmark"],"affiliations":[{"raw_affiliation_string":"University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5063433728"],"corresponding_institution_ids":["https://openalex.org/I177969490"],"apc_list":null,"apc_paid":null,"fwci":0.8716,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.76658443,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"2","issue":null,"first_page":"341","last_page":"348"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10064","display_name":"Complex Network Analysis Techniques","score":0.9926999807357788,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9883999824523926,"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/simulated-annealing","display_name":"Simulated annealing","score":0.722619354724884},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6955109238624573},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.6928634643554688},{"id":"https://openalex.org/keywords/iterated-local-search","display_name":"Iterated local search","score":0.6611011624336243},{"id":"https://openalex.org/keywords/iterated-function","display_name":"Iterated function","score":0.5016674995422363},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4935110807418823},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.4847671389579773},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.43427643179893494},{"id":"https://openalex.org/keywords/heuristic","display_name":"Heuristic","score":0.4283188581466675},{"id":"https://openalex.org/keywords/local-search","display_name":"Local search (optimization)","score":0.37321123480796814},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2257935106754303},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.19380661845207214}],"concepts":[{"id":"https://openalex.org/C126980161","wikidata":"https://www.wikidata.org/wiki/Q863783","display_name":"Simulated annealing","level":2,"score":0.722619354724884},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6955109238624573},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.6928634643554688},{"id":"https://openalex.org/C124145224","wikidata":"https://www.wikidata.org/wiki/Q6094397","display_name":"Iterated local search","level":3,"score":0.6611011624336243},{"id":"https://openalex.org/C140479938","wikidata":"https://www.wikidata.org/wiki/Q5254619","display_name":"Iterated function","level":2,"score":0.5016674995422363},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4935110807418823},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.4847671389579773},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.43427643179893494},{"id":"https://openalex.org/C173801870","wikidata":"https://www.wikidata.org/wiki/Q201413","display_name":"Heuristic","level":2,"score":0.4283188581466675},{"id":"https://openalex.org/C135320971","wikidata":"https://www.wikidata.org/wiki/Q1868524","display_name":"Local search (optimization)","level":2,"score":0.37321123480796814},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2257935106754303},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.19380661845207214},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/2908812.2908858","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2908812.2908858","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Genetic and Evolutionary Computation Conference 2016","raw_type":"proceedings-article"},{"id":"pmh:oai:sdu.dk:publications/1325b414-fe61-4e78-9721-614164ded8b0","is_oa":false,"landing_page_url":"https://portal.findresearcher.sdu.dk/da/publications/1325b414-fe61-4e78-9721-614164ded8b0","pdf_url":null,"source":{"id":"https://openalex.org/S4306400423","display_name":"University of Southern Denmark Research Portal (University of Southern Denmark)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I177969490","host_organization_name":"University of Southern Denmark","host_organization_lineage":["https://openalex.org/I177969490"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Larsen, S, Alk\u00e6rsig, F G, Ditzel, H, Jurisica, I, Alcaraz, N & Baumbach, J 2016, A Simulated Annealing Algorithm for Maximum Common Edge Subgraph Detection in Biological Networks. in T Friedrich (ed.), GECCO 2016 - Proceedings of the 2016 Genetic and Evolutionary Computation Conference. Association for Computing Machinery, pp. 341-348, Genetic and Evolutionary Computation Conference, Denver, United States, 20/07/2016. https://doi.org/10.1145/2908812.2908858","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320994","display_name":"Canada Research Chairs","ror":"https://ror.org/0517h6h17"},{"id":"https://openalex.org/F4320328088","display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda, Paraguay","ror":"https://ror.org/00aejfc65"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W120668671","https://openalex.org/W1518994209","https://openalex.org/W1527318567","https://openalex.org/W1801849579","https://openalex.org/W1974032838","https://openalex.org/W2014436490","https://openalex.org/W2024060531","https://openalex.org/W2024578140","https://openalex.org/W2031543355","https://openalex.org/W2034974600","https://openalex.org/W2039616005","https://openalex.org/W2046948610","https://openalex.org/W2068720406","https://openalex.org/W2082403159","https://openalex.org/W2103739920","https://openalex.org/W2118934251","https://openalex.org/W2125890008","https://openalex.org/W2130237248","https://openalex.org/W2131298592","https://openalex.org/W2132022337","https://openalex.org/W2139361324","https://openalex.org/W2153747625","https://openalex.org/W2153929049","https://openalex.org/W2163485494","https://openalex.org/W2169304553","https://openalex.org/W2171255489","https://openalex.org/W2306608239","https://openalex.org/W2476096155","https://openalex.org/W2563104793","https://openalex.org/W2755088640","https://openalex.org/W2951118224","https://openalex.org/W4247595764"],"related_works":["https://openalex.org/W2083844986","https://openalex.org/W2273445235","https://openalex.org/W2005660029","https://openalex.org/W2887485518","https://openalex.org/W1666350026","https://openalex.org/W1996453501","https://openalex.org/W4394238759","https://openalex.org/W2346455737","https://openalex.org/W4385205110","https://openalex.org/W3204855000"],"abstract_inverted_index":{"Network":[0],"alignment":[1,29],"is":[2,30,55,110,122],"a":[3,43,72,81,98,129],"challenging":[4],"computational":[5],"problem":[6,53],"that":[7,54,94],"identifies":[8],"node":[9],"or":[10,15],"edge":[11,51],"mappings":[12],"between":[13],"two":[14],"more":[16,38],"networks,":[17],"with":[18],"the":[19,47],"aim":[20],"to":[21,57,114,127],"unravel":[22,128],"common":[23,50,60,140],"patterns":[24],"among":[25],"them.":[26],"Pairwise":[27],"network":[28,35],"already":[31],"intractable,":[32],"making":[33],"multiple":[34,48,87,138],"comparison":[36],"even":[37],"difficult.":[39],"Here,":[40],"we":[41,124],"introduce":[42],"heuristic":[44],"algorithm":[45,70],"for":[46],"maximum":[49,139],"subgraph":[52],"able":[56],"detect":[58],"large":[59],"substructures":[61],"shared":[62],"across":[63],"multiple,":[64],"real-world":[65],"size":[66],"networks":[67,102],"efficiently.":[68],"Our":[69,108],"uses":[71],"combination":[73],"of":[74,100],"iterated":[75],"local":[76,88],"search,":[77],"simulated":[78],"annealing":[79,92],"and":[80,91,103,112],"pheromone-based":[82],"perturbation":[83],"strategy.":[84],"We":[85],"implemented":[86],"search":[89],"strategies":[90],"schedules,":[93],"were":[95],"evaluated":[96],"on":[97],"range":[99],"synthetic":[101],"real":[104],"protein-protein":[105],"interaction":[106],"networks.":[107],"method":[109],"parallelized":[111],"well-suited":[113],"exploit":[115],"current":[116],"multi-core":[117],"CPU":[118],"architectures.":[119],"While":[120],"it":[121,126],"generic,":[123],"apply":[125],"biochemical":[130],"backbone":[131],"inherent":[132],"in":[133],"different":[134],"species,":[135],"modeled":[136],"as":[137],"subgraphs.":[141]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}