{"id":"https://openalex.org/W4386548917","doi":"https://doi.org/10.1007/978-3-031-42697-1_5","title":"Cell-Level Pathway Scoring Comparison with\u00a0a\u00a0Biologically Constrained Variational Autoencoder","display_name":"Cell-Level Pathway Scoring Comparison with\u00a0a\u00a0Biologically Constrained Variational Autoencoder","publication_year":2023,"publication_date":"2023-01-01","ids":{"openalex":"https://openalex.org/W4386548917","doi":"https://doi.org/10.1007/978-3-031-42697-1_5"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-031-42697-1_5","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-031-42697-1_5","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","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/A5061846495","display_name":"Pelin Gundogdu","orcid":"https://orcid.org/0000-0002-1791-9457"},"institutions":[{"id":"https://openalex.org/I4210086910","display_name":"Fundaci\u00f3n Progreso y Salud","ror":"https://ror.org/0048t7e91","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210086910","https://openalex.org/I4210152975","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210133602","display_name":"Instituto de Biomedicina de Sevilla","ror":"https://ror.org/031zwx660","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I158283456","https://openalex.org/I4210133602","https://openalex.org/I79238269","https://openalex.org/I918821925"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Pelin Gundogdu","raw_affiliation_strings":["Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","institution_ids":["https://openalex.org/I4210086910"]},{"raw_affiliation_string":"Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","institution_ids":["https://openalex.org/I4210133602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042121717","display_name":"Miriam Pay\u00e1\u2010Milans","orcid":"https://orcid.org/0000-0002-7718-9011"},"institutions":[{"id":"https://openalex.org/I4210086910","display_name":"Fundaci\u00f3n Progreso y Salud","ror":"https://ror.org/0048t7e91","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210086910","https://openalex.org/I4210152975","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210133602","display_name":"Instituto de Biomedicina de Sevilla","ror":"https://ror.org/031zwx660","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I158283456","https://openalex.org/I4210133602","https://openalex.org/I79238269","https://openalex.org/I918821925"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Miriam Pay\u00e1-Milans","raw_affiliation_strings":["Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","institution_ids":["https://openalex.org/I4210086910"]},{"raw_affiliation_string":"Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","institution_ids":["https://openalex.org/I4210133602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000916564","display_name":"Inmaculada \u00c1lamo-\u00c1lvarez","orcid":"https://orcid.org/0000-0002-6295-0218"},"institutions":[{"id":"https://openalex.org/I4210086910","display_name":"Fundaci\u00f3n Progreso y Salud","ror":"https://ror.org/0048t7e91","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210086910","https://openalex.org/I4210152975","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210133602","display_name":"Instituto de Biomedicina de Sevilla","ror":"https://ror.org/031zwx660","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I158283456","https://openalex.org/I4210133602","https://openalex.org/I79238269","https://openalex.org/I918821925"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Inmaculada Alamo-Alvarez","raw_affiliation_strings":["Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","Department of Immunology, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","institution_ids":["https://openalex.org/I4210086910"]},{"raw_affiliation_string":"Department of Immunology, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","institution_ids":["https://openalex.org/I4210133602"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018933874","display_name":"Isabel A. Nepomuceno-Chamorro","orcid":"https://orcid.org/0000-0002-4255-7160"},"institutions":[{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Isabel A. Nepomuceno-Chamorro","raw_affiliation_strings":["Dpto. de Lenguajes y Sistemas Informaticos, University of Seville, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Dpto. de Lenguajes y Sistemas Informaticos, University of Seville, Sevilla, Spain","institution_ids":["https://openalex.org/I79238269"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074140420","display_name":"Joaqu\u0131\u0301n Dopazo","orcid":"https://orcid.org/0000-0003-3318-120X"},"institutions":[{"id":"https://openalex.org/I4210086910","display_name":"Fundaci\u00f3n Progreso y Salud","ror":"https://ror.org/0048t7e91","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210086910","https://openalex.org/I4210152975","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210111366","display_name":"Centre for Biomedical Network Research on Rare Diseases","ror":"https://ror.org/01ygm5w19","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210111366"]},{"id":"https://openalex.org/I4210115082","display_name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red","ror":"https://ror.org/02g87qh62","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210115082","https://openalex.org/I4387152914"]},{"id":"https://openalex.org/I4210133602","display_name":"Instituto de Biomedicina de Sevilla","ror":"https://ror.org/031zwx660","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I158283456","https://openalex.org/I4210133602","https://openalex.org/I79238269","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210153139","display_name":"Hospital Universitario Virgen del Roc\u00edo","ror":"https://ror.org/04vfhnm78","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210153139"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Joaquin Dopazo","raw_affiliation_strings":["Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Roc\u00edo, Sevilla, Spain","Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","FPS/ELIXIR-es, Hospital Virgen del Roc\u00edo, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","institution_ids":["https://openalex.org/I4210086910"]},{"raw_affiliation_string":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Raras (CIBERER), FPS, Hospital Virgen del Roc\u00edo, Sevilla, Spain","institution_ids":["https://openalex.org/I4210115082","https://openalex.org/I4210111366"]},{"raw_affiliation_string":"Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","institution_ids":["https://openalex.org/I4210133602"]},{"raw_affiliation_string":"FPS/ELIXIR-es, Hospital Virgen del Roc\u00edo, Sevilla, Spain","institution_ids":["https://openalex.org/I4210153139"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021802977","display_name":"Carlos Loucera","orcid":"https://orcid.org/0000-0001-9598-6965"},"institutions":[{"id":"https://openalex.org/I4210086910","display_name":"Fundaci\u00f3n Progreso y Salud","ror":"https://ror.org/0048t7e91","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210086910","https://openalex.org/I4210152975","https://openalex.org/I918821925"]},{"id":"https://openalex.org/I4210133602","display_name":"Instituto de Biomedicina de Sevilla","ror":"https://ror.org/031zwx660","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I158283456","https://openalex.org/I4210133602","https://openalex.org/I79238269","https://openalex.org/I918821925"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Carlos Loucera","raw_affiliation_strings":["Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain"],"affiliations":[{"raw_affiliation_string":"Andalusian Platform for Computational Medicine, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain","institution_ids":["https://openalex.org/I4210086910"]},{"raw_affiliation_string":"Computational Systems Medicine, Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, Sevilla, Spain","institution_ids":["https://openalex.org/I4210133602"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5018933874"],"corresponding_institution_ids":["https://openalex.org/I79238269"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.8333,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.7675428,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"62","last_page":"77"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":1.0,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9954000115394592,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T10604","display_name":"RNA Research and Splicing","score":0.9799000024795532,"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/computer-science","display_name":"Computer science","score":0.8078197836875916},{"id":"https://openalex.org/keywords/autoencoder","display_name":"Autoencoder","score":0.8037600517272949},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6654801964759827},{"id":"https://openalex.org/keywords/ground-truth","display_name":"Ground truth","score":0.6038955450057983},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5699484944343567},{"id":"https://openalex.org/keywords/layer","display_name":"Layer (electronics)","score":0.4927869141101837},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4563913345336914},{"id":"https://openalex.org/keywords/architecture","display_name":"Architecture","score":0.42880210280418396}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8078197836875916},{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.8037600517272949},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6654801964759827},{"id":"https://openalex.org/C146849305","wikidata":"https://www.wikidata.org/wiki/Q370766","display_name":"Ground truth","level":2,"score":0.6038955450057983},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5699484944343567},{"id":"https://openalex.org/C2779227376","wikidata":"https://www.wikidata.org/wiki/Q6505497","display_name":"Layer (electronics)","level":2,"score":0.4927869141101837},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4563913345336914},{"id":"https://openalex.org/C123657996","wikidata":"https://www.wikidata.org/wiki/Q12271","display_name":"Architecture","level":2,"score":0.42880210280418396},{"id":"https://openalex.org/C153349607","wikidata":"https://www.wikidata.org/wiki/Q36649","display_name":"Visual arts","level":1,"score":0.0},{"id":"https://openalex.org/C142362112","wikidata":"https://www.wikidata.org/wiki/Q735","display_name":"Art","level":0,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/978-3-031-42697-1_5","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-031-42697-1_5","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W1631320694","https://openalex.org/W2110065044","https://openalex.org/W2159482845","https://openalex.org/W2271840356","https://openalex.org/W2566814726","https://openalex.org/W2612519453","https://openalex.org/W2616922646","https://openalex.org/W2774307122","https://openalex.org/W2786672974","https://openalex.org/W2790179710","https://openalex.org/W2800392236","https://openalex.org/W2897249806","https://openalex.org/W2955621471","https://openalex.org/W2964121744","https://openalex.org/W3003257820","https://openalex.org/W3005127469","https://openalex.org/W3016020856","https://openalex.org/W3035965352","https://openalex.org/W3094540299","https://openalex.org/W3099878876","https://openalex.org/W3106188259","https://openalex.org/W3193938350","https://openalex.org/W3198138654","https://openalex.org/W3209238322","https://openalex.org/W3211402536","https://openalex.org/W4200538065","https://openalex.org/W4205511145","https://openalex.org/W4214876469","https://openalex.org/W4225279909","https://openalex.org/W4289527383","https://openalex.org/W4294740730","https://openalex.org/W4318981406","https://openalex.org/W4362521490","https://openalex.org/W4362734348","https://openalex.org/W4362737480","https://openalex.org/W4366392956"],"related_works":["https://openalex.org/W2159052453","https://openalex.org/W3013693939","https://openalex.org/W2566616303","https://openalex.org/W3131327266","https://openalex.org/W2752972570","https://openalex.org/W4297051394","https://openalex.org/W2734887215","https://openalex.org/W2803255133","https://openalex.org/W2669956259","https://openalex.org/W4249005693"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
