{"id":"https://openalex.org/W4400412727","doi":"https://doi.org/10.1145/3638529.3653990","title":"Semantically Rich Local Dataset Generation for Explainable AI in Genomics","display_name":"Semantically Rich Local Dataset Generation for Explainable AI in Genomics","publication_year":2024,"publication_date":"2024-07-08","ids":{"openalex":"https://openalex.org/W4400412727","doi":"https://doi.org/10.1145/3638529.3653990"},"language":"en","primary_location":{"id":"doi:10.1145/3638529.3653990","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3638529.3653990","pdf_url":null,"source":{"id":"https://openalex.org/S4363608932","display_name":"Proceedings of the Genetic and Evolutionary Computation Conference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Genetic and Evolutionary Computation Conference","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1145/3638529.3653990","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082500198","display_name":"Pedro Barbosa","orcid":"https://orcid.org/0000-0002-3892-7640"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]},{"id":"https://openalex.org/I4392738257","display_name":"Instituto de Medicina Molecular Jo\u00e3o Lobo Antunes","ror":"https://ror.org/019g8w217","country_code":null,"type":"facility","lineage":["https://openalex.org/I141596103","https://openalex.org/I4392738257"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Pedro Barbosa","raw_affiliation_strings":["Instituto de Medicina Molecular Jo\u00e3o Lobo Antunes, Lisbon, Portugal","LASIGE, Faculdade de Ci\u00eancias da Universidade de Lisboa, Lisbon, Portugal"],"raw_orcid":"https://orcid.org/0000-0002-3892-7640","affiliations":[{"raw_affiliation_string":"Instituto de Medicina Molecular Jo\u00e3o Lobo Antunes, Lisbon, Portugal","institution_ids":["https://openalex.org/I4392738257"]},{"raw_affiliation_string":"LASIGE, Faculdade de Ci\u00eancias da Universidade de Lisboa, Lisbon, Portugal","institution_ids":["https://openalex.org/I141596103"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031902962","display_name":"Rosina Savisaar","orcid":"https://orcid.org/0000-0002-8367-2317"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rosina Savisaar","raw_affiliation_strings":["Mondego Science, Paris, France"],"raw_orcid":"https://orcid.org/0000-0002-8367-2317","affiliations":[{"raw_affiliation_string":"Mondego Science, Paris, France","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089334093","display_name":"Alcides Fonseca","orcid":"https://orcid.org/0000-0002-0879-4015"},"institutions":[{"id":"https://openalex.org/I141596103","display_name":"University of Lisbon","ror":"https://ror.org/01c27hj86","country_code":"PT","type":"education","lineage":["https://openalex.org/I141596103"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Alcides Fonseca","raw_affiliation_strings":["LASIGE, Department of Informatics; Faculty of Sciences, University of Lisbon, Lisbon, Portugal"],"raw_orcid":"https://orcid.org/0000-0002-0879-4015","affiliations":[{"raw_affiliation_string":"LASIGE, Department of Informatics; Faculty of Sciences, University of Lisbon, Lisbon, Portugal","institution_ids":["https://openalex.org/I141596103"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.09250646,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"267","last_page":"276"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12026","display_name":"Explainable Artificial Intelligence (XAI)","score":0.9860000014305115,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12026","display_name":"Explainable Artificial Intelligence (XAI)","score":0.9860000014305115,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9790999889373779,"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/T10028","display_name":"Topic Modeling","score":0.972000002861023,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7611659169197083},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.505664587020874},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4488098621368408},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.43033719062805176},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.4157285988330841},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.09096035361289978},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07204362750053406},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.04393482208251953}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7611659169197083},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.505664587020874},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4488098621368408},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.43033719062805176},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.4157285988330841},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.09096035361289978},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07204362750053406},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.04393482208251953},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3638529.3653990","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3638529.3653990","pdf_url":null,"source":{"id":"https://openalex.org/S4363608932","display_name":"Proceedings of the Genetic and Evolutionary Computation Conference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Genetic and Evolutionary Computation Conference","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.1145/3638529.3653990","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3638529.3653990","pdf_url":null,"source":{"id":"https://openalex.org/S4363608932","display_name":"Proceedings of the Genetic and Evolutionary Computation Conference","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Genetic and Evolutionary Computation Conference","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":52,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1487397714","https://openalex.org/W1576818901","https://openalex.org/W2034068348","https://openalex.org/W2043435109","https://openalex.org/W2124766044","https://openalex.org/W2170820784","https://openalex.org/W2198606573","https://openalex.org/W2345512687","https://openalex.org/W2357558255","https://openalex.org/W2739349903","https://openalex.org/W2909194804","https://openalex.org/W2909466649","https://openalex.org/W2955041946","https://openalex.org/W2962897394","https://openalex.org/W2964244352","https://openalex.org/W3025733573","https://openalex.org/W3036652698","https://openalex.org/W3037592148","https://openalex.org/W3046003662","https://openalex.org/W3090308245","https://openalex.org/W3096838140","https://openalex.org/W3130819465","https://openalex.org/W3134921846","https://openalex.org/W3195758976","https://openalex.org/W3203588026","https://openalex.org/W3205470891","https://openalex.org/W3206573338","https://openalex.org/W4200232768","https://openalex.org/W4214608109","https://openalex.org/W4221128536","https://openalex.org/W4226065462","https://openalex.org/W4280563114","https://openalex.org/W4286461629","https://openalex.org/W4293569212","https://openalex.org/W4293583991","https://openalex.org/W4298289240","https://openalex.org/W4300862723","https://openalex.org/W4302439603","https://openalex.org/W4310506285","https://openalex.org/W4311415873","https://openalex.org/W4311820912","https://openalex.org/W4313367296","https://openalex.org/W4319923796","https://openalex.org/W4353056891","https://openalex.org/W4368617968","https://openalex.org/W4381547856","https://openalex.org/W4382343955","https://openalex.org/W4387948556","https://openalex.org/W4388721914","https://openalex.org/W4388744043","https://openalex.org/W4389613138"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W2382290278","https://openalex.org/W3204019825"],"abstract_inverted_index":{"Black":[0],"box":[1],"deep":[2],"learning":[3],"models":[4,22,41],"trained":[5],"on":[6],"genomic":[7],"sequences":[8],"excel":[9],"at":[10],"predicting":[11],"the":[12,28,61,64,72,80,89],"outcomes":[13],"of":[14,63,93],"different":[15],"gene":[16],"regulatory":[17],"mechanisms.":[18],"Therefore,":[19],"interpreting":[20],"these":[21],"may":[23],"provide":[24],"novel":[25],"insights":[26],"into":[27],"underlying":[29],"biology,":[30],"supporting":[31],"downstream":[32],"biomedical":[33],"applications.":[34],"Due":[35],"to":[36,71,88],"their":[37],"complexity,":[38],"interpretable":[39],"surrogate":[40],"can":[42],"only":[43],"be":[44],"built":[45],"for":[46],"local":[47],"explanations":[48],"(e.g.,":[49],"a":[50,58],"single":[51],"instance).":[52],"However,":[53],"accomplishing":[54],"this":[55],"requires":[56],"generating":[57],"dataset":[59],"in":[60,79],"neighborhood":[62],"input,":[65],"which":[66],"must":[67],"maintain":[68],"syntactic":[69],"similarity":[70],"original":[73],"data":[74],"while":[75],"introducing":[76],"semantic":[77],"variability":[78],"model's":[81],"predictions.":[82],"This":[83],"task":[84],"is":[85],"challenging":[86],"due":[87],"complex":[90],"sequence-to-function":[91],"relationship":[92],"DNA.":[94]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2024-07-09T00:00:00"}
