{"id":"https://openalex.org/W4225564644","doi":"https://doi.org/10.1186/s13040-021-00280-9","title":"Identification of natural selection in genomic data with deep convolutional neural network","display_name":"Identification of natural selection in genomic data with deep convolutional neural network","publication_year":2021,"publication_date":"2021-12-01","ids":{"openalex":"https://openalex.org/W4225564644","doi":"https://doi.org/10.1186/s13040-021-00280-9","pmid":"https://pubmed.ncbi.nlm.nih.gov/34863217"},"language":"en","primary_location":{"id":"doi:10.1186/s13040-021-00280-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00280-9","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00280-9","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00280-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088863376","display_name":"Arnaud Nguembang Fadja","orcid":"https://orcid.org/0000-0003-3352-5260"},"institutions":[{"id":"https://openalex.org/I201324441","display_name":"University of Ferrara","ror":"https://ror.org/041zkgm14","country_code":"IT","type":"education","lineage":["https://openalex.org/I201324441"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Arnaud Nguembang Fadja","raw_affiliation_strings":["Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy. arnaud.nguembafadja@unife.it","Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy"],"raw_orcid":"https://orcid.org/0000-0003-3352-5260","affiliations":[{"raw_affiliation_string":"Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy. arnaud.nguembafadja@unife.it","institution_ids":["https://openalex.org/I201324441"]},{"raw_affiliation_string":"Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy","institution_ids":["https://openalex.org/I201324441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086909487","display_name":"Fabrizio Riguzzi","orcid":"https://orcid.org/0000-0003-1654-9703"},"institutions":[{"id":"https://openalex.org/I201324441","display_name":"University of Ferrara","ror":"https://ror.org/041zkgm14","country_code":"IT","type":"education","lineage":["https://openalex.org/I201324441"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Fabrizio Riguzzi","raw_affiliation_strings":["Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Matematica e Informatica, University of Ferrara, Via Saragat 1, Ferrara, I-44122, Italy","institution_ids":["https://openalex.org/I201324441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024951992","display_name":"Giorgio Bertorelle","orcid":"https://orcid.org/0000-0002-2498-2702"},"institutions":[{"id":"https://openalex.org/I201324441","display_name":"University of Ferrara","ror":"https://ror.org/041zkgm14","country_code":"IT","type":"education","lineage":["https://openalex.org/I201324441"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giorgio Bertorelle","raw_affiliation_strings":["Dipartimento di Scienze della Vita e Biotecnologie, University of Ferrara, Via Luigi Borsari 46, Ferrara, I-44121, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Scienze della Vita e Biotecnologie, University of Ferrara, Via Luigi Borsari 46, Ferrara, I-44121, Italy","institution_ids":["https://openalex.org/I201324441"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015064770","display_name":"Emiliano Trucchi","orcid":"https://orcid.org/0000-0002-1270-5273"},"institutions":[{"id":"https://openalex.org/I122534668","display_name":"Marche Polytechnic University","ror":"https://ror.org/00x69rs40","country_code":"IT","type":"education","lineage":["https://openalex.org/I122534668"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Emiliano Trucchi","raw_affiliation_strings":["Dipartimento di Scienze della Vita e dell'Ambiente, Marche Polytechnic University, Via Brecce Bianche, Ancona, I-60131, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Scienze della Vita e dell'Ambiente, Marche Polytechnic University, Via Brecce Bianche, Ancona, I-60131, Italy","institution_ids":["https://openalex.org/I122534668"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5088863376"],"corresponding_institution_ids":["https://openalex.org/I201324441"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":2372,"currency":"EUR","value_usd":2558},"fwci":0.7329,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.69985853,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"14","issue":"1","first_page":"51","last_page":"51"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12946","display_name":"Fractal and DNA sequence analysis","score":0.16259999573230743,"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/T12946","display_name":"Fractal and DNA sequence analysis","score":0.16259999573230743,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.11060000211000443,"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/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.09849999845027924,"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/computer-science","display_name":"Computer science","score":0.738225519657135},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6960912942886353},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6853967308998108},{"id":"https://openalex.org/keywords/selection","display_name":"Selection (genetic algorithm)","score":0.5814912915229797},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5753030776977539},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.42268916964530945},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3953762948513031},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3738463521003723},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15621522068977356}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.738225519657135},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6960912942886353},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6853967308998108},{"id":"https://openalex.org/C81917197","wikidata":"https://www.wikidata.org/wiki/Q628760","display_name":"Selection (genetic algorithm)","level":2,"score":0.5814912915229797},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5753030776977539},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.42268916964530945},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3953762948513031},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3738463521003723},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15621522068977356},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.1186/s13040-021-00280-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00280-9","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00280-9","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},{"id":"pmid:34863217","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34863217","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":"BioData mining","raw_type":null},{"id":"pmh:oai:doaj.org/article:5e540e5ba9c846429f8779d37d55e3f3","is_oa":true,"landing_page_url":"https://doaj.org/article/5e540e5ba9c846429f8779d37d55e3f3","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Mining, Vol 14, Iss 1, Pp 1-18 (2021)","raw_type":"article"},{"id":"pmh:oai:iris.unife.it:11392/2469739","is_oa":true,"landing_page_url":"https://hdl.handle.net/11392/2469739","pdf_url":null,"source":{"id":"https://openalex.org/S4306400369","display_name":"Institutional Research Information System University of Ferrara (University of Ferrara)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I201324441","host_organization_name":"University of Ferrara","host_organization_lineage":["https://openalex.org/I201324441"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:iris.univpm.it:11566/297181","is_oa":true,"landing_page_url":"https://biodatamining.biomedcentral.com/articles/10.1186/s13040-021-00280-9#citeas","pdf_url":null,"source":{"id":"https://openalex.org/S4306402571","display_name":"Universit\u00e0 Politecnica delle Marche (Universit\u00e0 Politecnica delle Marche)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122534668","host_organization_name":"Marche Polytechnic University","host_organization_lineage":["https://openalex.org/I122534668"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8642854","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8642854","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Min","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13040-021-00280-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-021-00280-9","pdf_url":"https://biodatamining.biomedcentral.com/track/pdf/10.1186/s13040-021-00280-9","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320311030","display_name":"Istituto Nazionale di Alta Matematica \"Francesco Severi\"","ror":"https://ror.org/01vx64p53"},{"id":"https://openalex.org/F4320334079","display_name":"Gruppo Nazionale per il Calcolo Scientifico","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4225564644.pdf","grobid_xml":"https://content.openalex.org/works/W4225564644.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1503398984","https://openalex.org/W1571065866","https://openalex.org/W1955857676","https://openalex.org/W2058536769","https://openalex.org/W2104352549","https://openalex.org/W2104846587","https://openalex.org/W2116668053","https://openalex.org/W2134599124","https://openalex.org/W2135911829","https://openalex.org/W2144658220","https://openalex.org/W2217809488","https://openalex.org/W2322112093","https://openalex.org/W2767062083","https://openalex.org/W2783880833","https://openalex.org/W2884865453","https://openalex.org/W2901218091","https://openalex.org/W2919115771","https://openalex.org/W2935703330","https://openalex.org/W2945282217","https://openalex.org/W2975990515","https://openalex.org/W2989915159","https://openalex.org/W3036780692","https://openalex.org/W3102490429","https://openalex.org/W3126467675","https://openalex.org/W4210633230","https://openalex.org/W4210953474","https://openalex.org/W4235424541","https://openalex.org/W4246202069","https://openalex.org/W4251081792","https://openalex.org/W6603161775","https://openalex.org/W6757952529"],"related_works":["https://openalex.org/W4293226380","https://openalex.org/W4313906399","https://openalex.org/W4321487865","https://openalex.org/W2811106690","https://openalex.org/W4239306820","https://openalex.org/W2947043951","https://openalex.org/W2318112981","https://openalex.org/W4312417841","https://openalex.org/W4205762803","https://openalex.org/W4225147082"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"the":[2,5,112,128,140],"increase":[3],"in":[4,12,62,81],"size":[6],"of":[7,65,102,108,130,152],"genomic":[8,49,97,103,125],"datasets":[9],"describing":[10],"variability":[11],"populations,":[13],"extracting":[14],"relevant":[15],"information":[16],"becomes":[17],"increasingly":[18],"useful":[19],"as":[20,22,28,75,100],"well":[21],"complex.":[23],"Recently,":[24],"computational":[25],"methodologies":[26],"such":[27],"Supervised":[29,67,92],"Machine":[30,68,93],"Learning":[31,69,94],"and":[32,45,60,147],"specifically":[33],"Convolutional":[34,116],"Neural":[35,117],"Networks":[36],"have":[37],"been":[38],"proposed":[39,141],"to":[40,57,72,76,111,121],"make":[41],"inferences":[42],"on":[43,91,135,150],"demographic":[44],"adaptive":[46],"processes":[47,149],"using":[48],"data.":[50],"Even":[51],"though":[52],"it":[53],"was":[54],"already":[55],"shown":[56],"be":[58,73],"powerful":[59],"efficient":[61],"different":[63],"fields":[64],"investigation,":[66],"has":[70],"still":[71],"explored":[74],"unfold":[77],"its":[78],"enormous":[79],"potential":[80],"evolutionary":[82],"genomics.":[83],"RESULTS:":[84],"The":[85],"paper":[86],"proposes":[87],"a":[88,106,124],"method":[89],"based":[90],"for":[95],"classifying":[96],"data,":[98],"represented":[99],"windows":[101],"sequences":[104],"from":[105,155],"sample":[107],"individuals":[109],"belonging":[110],"same":[113],"population.":[114],"A":[115],"Network":[118],"is":[119],"used":[120],"test":[122],"whether":[123],"window":[126],"shows":[127],"signature":[129],"natural":[131],"selection.":[132],"Training":[133],"performed":[134],"simulated":[136],"data":[137],"show":[138],"that":[139],"model":[142],"can":[143],"accurately":[144],"predict":[145],"neutral":[146],"selection":[148],"portions":[151],"genomes":[153],"taken":[154],"real":[156],"populations":[157],"with":[158],"almost":[159],"90%":[160],"accuracy.":[161]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
