{"id":"https://openalex.org/W4412856322","doi":"https://doi.org/10.3389/frai.2025.1595291","title":"Visible neural networks for multi-omics integration: a critical review","display_name":"Visible neural networks for multi-omics integration: a critical review","publication_year":2025,"publication_date":"2025-07-17","ids":{"openalex":"https://openalex.org/W4412856322","doi":"https://doi.org/10.3389/frai.2025.1595291","pmid":"https://pubmed.ncbi.nlm.nih.gov/40746431"},"language":"en","primary_location":{"id":"doi:10.3389/frai.2025.1595291","is_oa":true,"landing_page_url":"https://doi.org/10.3389/frai.2025.1595291","pdf_url":"https://public-pages-files-2025.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2025.1595291/pdf","source":{"id":"https://openalex.org/S4210197006","display_name":"Frontiers in Artificial Intelligence","issn_l":"2624-8212","issn":["2624-8212"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Artificial Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://public-pages-files-2025.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2025.1595291/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082269720","display_name":"David Selby","orcid":"https://orcid.org/0000-0001-8026-5663"},"institutions":[{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"David Antony Selby","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115446599","display_name":"Rashika Jakhmola","orcid":null},"institutions":[{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Rashika Jakhmola","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","School of Computation, Information and Technology, Technical University of Munich, Munich, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]},{"raw_affiliation_string":"School of Computation, Information and Technology, Technical University of Munich, Munich, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041678821","display_name":"Maximilian Sprang","orcid":"https://orcid.org/0000-0002-8438-4747"},"institutions":[{"id":"https://openalex.org/I197323543","display_name":"Johannes Gutenberg University Mainz","ror":"https://ror.org/023b0x485","country_code":"DE","type":"education","lineage":["https://openalex.org/I197323543"]},{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]},{"id":"https://openalex.org/I4210094062","display_name":"University Medical Center of the Johannes Gutenberg University Mainz","ror":"https://ror.org/00q1fsf04","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210094062"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Maximilian Sprang","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","Department of Dermatology, University Medical Center of the Johannes Gutenberg-University Mainz, Mainz, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]},{"raw_affiliation_string":"Department of Dermatology, University Medical Center of the Johannes Gutenberg-University Mainz, Mainz, Germany","institution_ids":["https://openalex.org/I197323543","https://openalex.org/I4210094062"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041210187","display_name":"Gerrit Gro\u00dfmann","orcid":"https://orcid.org/0000-0002-4933-447X"},"institutions":[{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Gerrit Gro\u00dfmann","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084460745","display_name":"Hind Raki","orcid":"https://orcid.org/0000-0002-2670-1011"},"institutions":[{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]},{"id":"https://openalex.org/I4210131560","display_name":"Universit\u00e9 Mohammed VI Polytechnique","ror":"https://ror.org/03xc55g68","country_code":"MA","type":"education","lineage":["https://openalex.org/I4210131560"]}],"countries":["DE","MA"],"is_corresponding":false,"raw_author_name":"Hind Raki","raw_affiliation_strings":["College of Computing, University Mohammed VI Polytechnic, Ben Guerir, Morocco","Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computing, University Mohammed VI Polytechnic, Ben Guerir, Morocco","institution_ids":["https://openalex.org/I4210131560"]},{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Niloofar Maani","orcid":null},"institutions":[{"id":"https://openalex.org/I153267046","display_name":"University of Kaiserslautern","ror":"https://ror.org/04zrf7b53","country_code":"DE","type":"education","lineage":["https://openalex.org/I153267046"]},{"id":"https://openalex.org/I2802076133","display_name":"University of Koblenz and Landau","ror":"https://ror.org/01j9f6752","country_code":"DE","type":"education","lineage":["https://openalex.org/I2802076133"]},{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Niloofar Maani","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]},{"raw_affiliation_string":"Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I153267046","https://openalex.org/I2802076133"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115446600","display_name":"Daria Pavliuk","orcid":null},"institutions":[{"id":"https://openalex.org/I153267046","display_name":"University of Kaiserslautern","ror":"https://ror.org/04zrf7b53","country_code":"DE","type":"education","lineage":["https://openalex.org/I153267046"]},{"id":"https://openalex.org/I2802076133","display_name":"University of Koblenz and Landau","ror":"https://ror.org/01j9f6752","country_code":"DE","type":"education","lineage":["https://openalex.org/I2802076133"]},{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daria Pavliuk","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]},{"raw_affiliation_string":"Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I153267046","https://openalex.org/I2802076133"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063818297","display_name":"Jan Ewald","orcid":"https://orcid.org/0000-0002-9415-2317"},"institutions":[{"id":"https://openalex.org/I4401726909","display_name":"Center for Scalable Data Analytics and Artificial Intelligence","ror":"https://ror.org/01t4ttr56","country_code":"DE","type":"education","lineage":["https://openalex.org/I4401726909","https://openalex.org/I78650965","https://openalex.org/I926574661"]},{"id":"https://openalex.org/I926574661","display_name":"Leipzig University","ror":"https://ror.org/03s7gtk40","country_code":"DE","type":"education","lineage":["https://openalex.org/I926574661"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jan Ewald","raw_affiliation_strings":["Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, Leipzig University, Leipzig, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Scalable Data Analytics and Artificial Intelligence (ScaDS.AI) Dresden/Leipzig, Leipzig University, Leipzig, Germany","institution_ids":["https://openalex.org/I4401726909","https://openalex.org/I926574661"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003185028","display_name":"Sebastian J. Vollmer","orcid":"https://orcid.org/0000-0003-2831-1401"},"institutions":[{"id":"https://openalex.org/I153267046","display_name":"University of Kaiserslautern","ror":"https://ror.org/04zrf7b53","country_code":"DE","type":"education","lineage":["https://openalex.org/I153267046"]},{"id":"https://openalex.org/I2802076133","display_name":"University of Koblenz and Landau","ror":"https://ror.org/01j9f6752","country_code":"DE","type":"education","lineage":["https://openalex.org/I2802076133"]},{"id":"https://openalex.org/I33256026","display_name":"German Research Centre for Artificial Intelligence","ror":"https://ror.org/01ayc5b57","country_code":"DE","type":"funder","lineage":["https://openalex.org/I33256026"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Sebastian Vollmer","raw_affiliation_strings":["Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science and its Applications, German Research Center for Artificial Intelligence (DFKI), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I33256026"]},{"raw_affiliation_string":"Department of Computer Science, University of Kaiserslautern-Landau (RPTU), Kaiserslautern, Germany","institution_ids":["https://openalex.org/I153267046","https://openalex.org/I2802076133"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5003185028","https://openalex.org/A5082269720"],"corresponding_institution_ids":["https://openalex.org/I153267046","https://openalex.org/I2802076133","https://openalex.org/I33256026"],"apc_list":{"value":2125,"currency":"USD","value_usd":2125},"apc_paid":{"value":2125,"currency":"USD","value_usd":2125},"fwci":4.7646,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.95824152,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":100},"biblio":{"volume":"8","issue":null,"first_page":"1595291","last_page":"1595291"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.44999998807907104,"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":0.44999998807907104,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.08470000326633453,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.057999998331069946,"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/interpretability","display_name":"Interpretability","score":0.717860996723175},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.681734025478363},{"id":"https://openalex.org/keywords/standardization","display_name":"Standardization","score":0.6206325888633728},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5083474516868591},{"id":"https://openalex.org/keywords/terminology","display_name":"Terminology","score":0.5025119781494141},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.49354445934295654},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4723830223083496},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.43641209602355957},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4272683560848236},{"id":"https://openalex.org/keywords/knowledge-extraction","display_name":"Knowledge extraction","score":0.42236804962158203}],"concepts":[{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.717860996723175},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.681734025478363},{"id":"https://openalex.org/C188087704","wikidata":"https://www.wikidata.org/wiki/Q369577","display_name":"Standardization","level":2,"score":0.6206325888633728},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5083474516868591},{"id":"https://openalex.org/C547195049","wikidata":"https://www.wikidata.org/wiki/Q1725664","display_name":"Terminology","level":2,"score":0.5025119781494141},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.49354445934295654},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4723830223083496},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.43641209602355957},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4272683560848236},{"id":"https://openalex.org/C120567893","wikidata":"https://www.wikidata.org/wiki/Q1582085","display_name":"Knowledge extraction","level":2,"score":0.42236804962158203},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3389/frai.2025.1595291","is_oa":true,"landing_page_url":"https://doi.org/10.3389/frai.2025.1595291","pdf_url":"https://public-pages-files-2025.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2025.1595291/pdf","source":{"id":"https://openalex.org/S4210197006","display_name":"Frontiers in Artificial Intelligence","issn_l":"2624-8212","issn":["2624-8212"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Artificial Intelligence","raw_type":"journal-article"},{"id":"pmid:40746431","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40746431","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":"Frontiers in artificial intelligence","raw_type":null},{"id":"pmh:oai:doaj.org/article:96286496cbd14fc6ad667b96f063b3a6","is_oa":true,"landing_page_url":"https://doaj.org/article/96286496cbd14fc6ad667b96f063b3a6","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Artificial Intelligence, Vol 8 (2025)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:11123424","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12310660","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"}],"best_oa_location":{"id":"doi:10.3389/frai.2025.1595291","is_oa":true,"landing_page_url":"https://doi.org/10.3389/frai.2025.1595291","pdf_url":"https://public-pages-files-2025.frontiersin.org/journals/artificial-intelligence/articles/10.3389/frai.2025.1595291/pdf","source":{"id":"https://openalex.org/S4210197006","display_name":"Frontiers in Artificial Intelligence","issn_l":"2624-8212","issn":["2624-8212"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Artificial Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.4099999964237213,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G662888678","display_name":null,"funder_award_id":"Clusters4Future","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320323644","display_name":"S\u00e4chsisches Staatsministerium f\u00fcr Wissenschaft und Kunst","ror":"https://ror.org/05wnef833"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4412856322.pdf","grobid_xml":"https://content.openalex.org/works/W4412856322.grobid-xml"},"referenced_works_count":122,"referenced_works":["https://openalex.org/W2028133290","https://openalex.org/W2033325031","https://openalex.org/W2055214702","https://openalex.org/W2084341220","https://openalex.org/W2098045561","https://openalex.org/W2159482845","https://openalex.org/W2276765849","https://openalex.org/W2611138580","https://openalex.org/W2615066396","https://openalex.org/W2741564801","https://openalex.org/W2790179710","https://openalex.org/W2803116354","https://openalex.org/W2807280338","https://openalex.org/W2890964550","https://openalex.org/W2904997892","https://openalex.org/W2932347607","https://openalex.org/W2944664266","https://openalex.org/W2944869129","https://openalex.org/W2947487104","https://openalex.org/W2947723635","https://openalex.org/W2953208595","https://openalex.org/W2959756585","https://openalex.org/W2963755523","https://openalex.org/W2982585804","https://openalex.org/W2994056986","https://openalex.org/W3000045279","https://openalex.org/W3003192283","https://openalex.org/W3010336026","https://openalex.org/W3029447859","https://openalex.org/W3047163763","https://openalex.org/W3094209067","https://openalex.org/W3094540299","https://openalex.org/W3097649106","https://openalex.org/W3118615836","https://openalex.org/W3153405385","https://openalex.org/W3159412124","https://openalex.org/W3163824856","https://openalex.org/W3163993681","https://openalex.org/W3178052844","https://openalex.org/W3182145057","https://openalex.org/W3186265534","https://openalex.org/W3198168376","https://openalex.org/W3199585733","https://openalex.org/W3199772305","https://openalex.org/W3202428668","https://openalex.org/W3204708585","https://openalex.org/W3211168122","https://openalex.org/W3216159635","https://openalex.org/W4205511145","https://openalex.org/W4220816230","https://openalex.org/W4225278475","https://openalex.org/W4226287563","https://openalex.org/W4251447235","https://openalex.org/W4282813238","https://openalex.org/W4283749998","https://openalex.org/W4287690455","https://openalex.org/W4291286390","https://openalex.org/W4293212631","https://openalex.org/W4294216483","https://openalex.org/W4295295996","https://openalex.org/W4296780663","https://openalex.org/W4296838339","https://openalex.org/W4300862723","https://openalex.org/W4309611604","https://openalex.org/W4318981406","https://openalex.org/W4318983406","https://openalex.org/W4320733308","https://openalex.org/W4323036511","https://openalex.org/W4376601565","https://openalex.org/W4376643505","https://openalex.org/W4380303551","https://openalex.org/W4380353909","https://openalex.org/W4380869622","https://openalex.org/W4382318725","https://openalex.org/W4383873060","https://openalex.org/W4384406530","https://openalex.org/W4385294821","https://openalex.org/W4385497292","https://openalex.org/W4386387831","https://openalex.org/W4386748529","https://openalex.org/W4387226362","https://openalex.org/W4387495568","https://openalex.org/W4388704714","https://openalex.org/W4388706662","https://openalex.org/W4391381065","https://openalex.org/W4392141971","https://openalex.org/W4392168151","https://openalex.org/W4392352284","https://openalex.org/W4392352464","https://openalex.org/W4395660270","https://openalex.org/W4395954533","https://openalex.org/W4396230578","https://openalex.org/W4396668454","https://openalex.org/W4396954011","https://openalex.org/W4396976722","https://openalex.org/W4399387478","https://openalex.org/W4399583941","https://openalex.org/W4399721819","https://openalex.org/W4399766536","https://openalex.org/W4400038656","https://openalex.org/W4400275609","https://openalex.org/W4400303161","https://openalex.org/W4401201949","https://openalex.org/W4401455176","https://openalex.org/W4401481769","https://openalex.org/W4402590027","https://openalex.org/W4402594043","https://openalex.org/W4405626709","https://openalex.org/W4406262333","https://openalex.org/W4408154730","https://openalex.org/W4411057949","https://openalex.org/W6752307458","https://openalex.org/W6759071822","https://openalex.org/W6763143510","https://openalex.org/W6798234632","https://openalex.org/W6838879557","https://openalex.org/W6843491898","https://openalex.org/W6853157686","https://openalex.org/W6856927073","https://openalex.org/W6870724259","https://openalex.org/W6885153618","https://openalex.org/W7006806681"],"related_works":["https://openalex.org/W2905433371","https://openalex.org/W2888392564","https://openalex.org/W4310278675","https://openalex.org/W4388422664","https://openalex.org/W2390249510","https://openalex.org/W2389049429","https://openalex.org/W3031493161","https://openalex.org/W2350181254","https://openalex.org/W2346373303","https://openalex.org/W2387710870"],"abstract_inverted_index":{"Background:":[0],"Biomarker":[1],"discovery":[2],"and":[3,62,116,142,166,173],"drug":[4],"response":[5],"prediction":[6],"are":[7,47,53,87],"central":[8],"to":[9,29,41,84,107],"personalized":[10,158],"medicine,":[11],"driving":[12],"demand":[13],"for":[14,150,157,170],"predictive":[15,155],"models":[16,67,156],"that":[17,86],"also":[18,27],"offer":[19],"biological":[20,152],"insights.":[21],"Biologically":[22],"informed":[23],"neural":[24,32,48],"networks":[25,33,49],"(BINNs),":[26],"referred":[28],"as":[30,38],"visible":[31],"(VNNs),":[34],"have":[35],"recently":[36],"emerged":[37],"a":[39,123,135,147],"solution":[40],"this":[42,129],"goal.":[43],"BINNs":[44],"or":[45],"VNNs":[46],"whose":[50],"inter-layer":[51],"connections":[52],"constrained":[54],"based":[55],"on":[56],"prior":[57,72],"knowledge":[58,73,153],"from":[59],"gene":[60],"ontologies":[61],"pathway":[63],"databases.":[64],"These":[65],"sparse":[66],"enhance":[68],"interpretability":[69],"by":[70],"embedding":[71],"into":[74,154],"their":[75],"architecture,":[76],"ideally":[77],"reducing":[78],"the":[79,161,177],"space":[80],"of":[81,95,126,137],"learnable":[82],"functions":[83],"those":[85],"biologically":[88],"meaningful.":[89],"Methods:":[90],"This":[91],"systematic":[92],"review-the":[93],"first":[94],"its":[96],"kind-identified":[97],"86":[98],"recent":[99],"papers":[100,106],"implementing":[101],"BINNs/VNNs.":[102,127],"We":[103],"analyzed":[104],"these":[105],"highlight":[108],"key":[109],"trends":[110],"in":[111,164,176],"architectural":[112],"design,":[113],"data":[114],"sources":[115],"evaluation":[117],"methodologies.":[118],"Results:":[119],"Our":[120],"analysis":[121],"reveals":[122],"growing":[124],"adoption":[125,172],"However,":[128],"growth":[130],"is":[131,168],"apparently":[132],"juxtaposed":[133],"with":[134],"lack":[136],"standardized,":[138],"terminology,":[139],"computational":[140],"tools":[141],"benchmarks.":[143],"Conclusion:":[144],"BINNs/VNNs":[145],"represent":[146],"promising":[148],"approach":[149],"integrating":[151],"medicine.":[159],"Addressing":[160],"current":[162],"deficiencies":[163],"standardization":[165],"tooling":[167],"important":[169],"widespread":[171],"further":[174],"progress":[175],"field.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":2}],"updated_date":"2026-08-08T01:25:22.217667","created_date":"2025-10-10T00:00:00"}
