{"id":"https://openalex.org/W4405363159","doi":"https://doi.org/10.1371/journal.pcbi.1012656","title":"ClustAll: An R package for patient stratification in complex diseases","display_name":"ClustAll: An R package for patient stratification in complex diseases","publication_year":2024,"publication_date":"2024-12-13","ids":{"openalex":"https://openalex.org/W4405363159","doi":"https://doi.org/10.1371/journal.pcbi.1012656","pmid":"https://pubmed.ncbi.nlm.nih.gov/39671459"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1012656","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012656","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1012656","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5092386391","display_name":"Asier Ortega\u2010Legarreta","orcid":"https://orcid.org/0009-0000-3563-5362"},"institutions":[{"id":"https://openalex.org/I175051016","display_name":"Universidad P\u00fablica de Navarra (UPNA)","ror":"https://ror.org/02z0cah89","country_code":"ES","type":"education","lineage":["https://openalex.org/I175051016"]},{"id":"https://openalex.org/I4210117069","display_name":"Navarrabiomed","ror":"https://ror.org/03atdda90","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I4210117069"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Asier Ortega-Legarreta","raw_affiliation_strings":["Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I4210117069"]},{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I175051016","https://openalex.org/I4210117069"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076937452","display_name":"Sara Palomino\u2010Echeverr\u00eda","orcid":"https://orcid.org/0000-0002-0451-3749"},"institutions":[{"id":"https://openalex.org/I175051016","display_name":"Universidad P\u00fablica de Navarra (UPNA)","ror":"https://ror.org/02z0cah89","country_code":"ES","type":"education","lineage":["https://openalex.org/I175051016"]},{"id":"https://openalex.org/I4210117069","display_name":"Navarrabiomed","ror":"https://ror.org/03atdda90","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I4210117069"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Sara Palomino-Echeverria","raw_affiliation_strings":["Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain"],"raw_orcid":"https://orcid.org/0000-0002-0451-3749","affiliations":[{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I4210117069"]},{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I175051016","https://openalex.org/I4210117069"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090547405","display_name":"Estefan\u00eda Huergo","orcid":"https://orcid.org/0000-0001-5063-099X"},"institutions":[{"id":"https://openalex.org/I175051016","display_name":"Universidad P\u00fablica de Navarra (UPNA)","ror":"https://ror.org/02z0cah89","country_code":"ES","type":"education","lineage":["https://openalex.org/I175051016"]},{"id":"https://openalex.org/I4210117069","display_name":"Navarrabiomed","ror":"https://ror.org/03atdda90","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I4210117069"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Estefania Huergo","raw_affiliation_strings":["Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I4210117069"]},{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I175051016","https://openalex.org/I4210117069"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016518691","display_name":"Vincenzo Lagani","orcid":"https://orcid.org/0000-0002-6552-6076"},"institutions":[{"id":"https://openalex.org/I183003952","display_name":"Ilia State University","ror":"https://ror.org/051qn8h41","country_code":"GE","type":"education","lineage":["https://openalex.org/I183003952"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["GE","SA"],"is_corresponding":true,"raw_author_name":"Vincenzo Lagani","raw_affiliation_strings":["Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Institute of Chemical Biology, Ilia State University, Tbilisi, Georgia","SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, Thuwal, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Institute of Chemical Biology, Ilia State University, Tbilisi, Georgia","institution_ids":["https://openalex.org/I183003952"]},{"raw_affiliation_string":"SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055536778","display_name":"Narsis A. Kiani","orcid":"https://orcid.org/0000-0002-0949-046X"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Narsis A. Kiani","raw_affiliation_strings":["Algorithmic Dynamics lab, Karolinska Institutet, Solna, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Algorithmic Dynamics lab, Karolinska Institutet, Solna, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044500021","display_name":"Pierre\u2010Emmanuel Rautou","orcid":"https://orcid.org/0000-0001-9567-1859"},"institutions":[{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I204730241","display_name":"Universit\u00e9 Paris Cit\u00e9","ror":"https://ror.org/05f82e368","country_code":"FR","type":"education","lineage":["https://openalex.org/I204730241"]},{"id":"https://openalex.org/I2799502834","display_name":"H\u00f4pital Beaujon","ror":"https://ror.org/03jyzk483","country_code":"FR","type":"healthcare","lineage":["https://openalex.org/I2799502834","https://openalex.org/I4210097159"]},{"id":"https://openalex.org/I4210097159","display_name":"Assistance Publique \u2013 H\u00f4pitaux de Paris","ror":"https://ror.org/00pg5jh14","country_code":"FR","type":"healthcare","lineage":["https://openalex.org/I4210097159"]},{"id":"https://openalex.org/I4210130096","display_name":"Centre de Recherche sur l'Inflammation","ror":"https://ror.org/02gn50d10","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210096427","https://openalex.org/I4210130096"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Pierre-Emmanuel Rautou","raw_affiliation_strings":["AP-HP, H\u00f4pital Beaujon, Service d'H\u00e9patologie, DMU DIGEST, Centre de R\u00e9f\u00e9rence des Maladies Vasculaires du Foie, FILFOIE, ERN RARE-LIVER, Clichy, France","Universit\u00e9 Paris-Cit\u00e9, Inserm, Centre de recherche sur l'inflammation, UMR, Paris, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"AP-HP, H\u00f4pital Beaujon, Service d'H\u00e9patologie, DMU DIGEST, Centre de R\u00e9f\u00e9rence des Maladies Vasculaires du Foie, FILFOIE, ERN RARE-LIVER, Clichy, France","institution_ids":["https://openalex.org/I2799502834","https://openalex.org/I4210097159"]},{"raw_affiliation_string":"Universit\u00e9 Paris-Cit\u00e9, Inserm, Centre de recherche sur l'inflammation, UMR, Paris, France","institution_ids":["https://openalex.org/I154526488","https://openalex.org/I204730241","https://openalex.org/I4210130096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115429331","display_name":"Nuria Planell Picola","orcid":null},"institutions":[{"id":"https://openalex.org/I4210112085","display_name":"Navarre Institute of Health Research","ror":"https://ror.org/023d5h353","country_code":"ES","type":"education","lineage":["https://openalex.org/I4210112085"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Nuria Planell Picola","raw_affiliation_strings":["Computational Biology Program, Universidad de Navarra, CIMA, Instituto de Investigaci\u00f3n Sanitaria de Navarra (IdiSNA), Navarra, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology Program, Universidad de Navarra, CIMA, Instituto de Investigaci\u00f3n Sanitaria de Navarra (IdiSNA), Navarra, Spain","institution_ids":["https://openalex.org/I4210112085","https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035252549","display_name":"Jesper Tegn\u00e9r","orcid":"https://orcid.org/0000-0002-9568-5588"},"institutions":[{"id":"https://openalex.org/I1335113835","display_name":"Karolinska University Hospital","ror":"https://ror.org/00m8d6786","country_code":"SE","type":"healthcare","lineage":["https://openalex.org/I1335113835"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA","SE"],"is_corresponding":true,"raw_author_name":"Jesper Tegner","raw_affiliation_strings":["Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Unit of Computational Medicine, Department of Medicine, Center for Molecular Medicine, Karolinska Institutet, Karolinska University Hospital, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Unit of Computational Medicine, Department of Medicine, Center for Molecular Medicine, Karolinska Institutet, Karolinska University Hospital, Stockholm, Sweden","institution_ids":["https://openalex.org/I1335113835","https://openalex.org/I28166907"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5078466508","display_name":"David G\u00f3mez-Cabrero","orcid":"https://orcid.org/0000-0003-4186-3788"},"institutions":[{"id":"https://openalex.org/I175051016","display_name":"Universidad P\u00fablica de Navarra (UPNA)","ror":"https://ror.org/02z0cah89","country_code":"ES","type":"education","lineage":["https://openalex.org/I175051016"]},{"id":"https://openalex.org/I4210117069","display_name":"Navarrabiomed","ror":"https://ror.org/03atdda90","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I4210117069"]},{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["ES","SA"],"is_corresponding":true,"raw_author_name":"David Gomez-Cabrero","raw_affiliation_strings":["Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed-Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I4210117069"]},{"raw_affiliation_string":"Unit of Translational Bioinformatics, Navarrabiomed\u2014Fundaci\u00f3n Miguel Servet, Universidad Publica de Navarra (UPNA), IdiSNA, Pamplona, Spain","institution_ids":["https://openalex.org/I175051016","https://openalex.org/I4210117069"]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5016518691","https://openalex.org/A5035252549","https://openalex.org/A5044500021","https://openalex.org/A5055536778","https://openalex.org/A5076937452","https://openalex.org/A5078466508","https://openalex.org/A5090547405","https://openalex.org/A5092386391","https://openalex.org/A5115429331"],"corresponding_institution_ids":["https://openalex.org/I1335113835","https://openalex.org/I154526488","https://openalex.org/I175051016","https://openalex.org/I183003952","https://openalex.org/I204730241","https://openalex.org/I2799502834","https://openalex.org/I28166907","https://openalex.org/I4210097159","https://openalex.org/I4210112085","https://openalex.org/I4210117069","https://openalex.org/I4210130096","https://openalex.org/I71920554","https://openalex.org/I88155538"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.20495352,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"20","issue":"12","first_page":"e1012656","last_page":"e1012656"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9944999814033508,"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"}},"topics":[{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9944999814033508,"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"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9822999835014343,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11369","display_name":"Genetic factors in colorectal cancer","score":0.9785000085830688,"subfield":{"id":"https://openalex.org/subfields/2734","display_name":"Pathology and Forensic Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.7010974884033203},{"id":"https://openalex.org/keywords/collinearity","display_name":"Collinearity","score":0.6493932008743286},{"id":"https://openalex.org/keywords/personalized-medicine","display_name":"Personalized medicine","score":0.640580952167511},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6287086606025696},{"id":"https://openalex.org/keywords/stratification","display_name":"Stratification (seeds)","score":0.616021990776062},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5634532570838928},{"id":"https://openalex.org/keywords/population-stratification","display_name":"Population stratification","score":0.5026323795318604},{"id":"https://openalex.org/keywords/precision-medicine","display_name":"Precision medicine","score":0.4777614176273346},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.4737492501735687},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4629790186882019},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4248011112213135},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3833804130554199},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.36913520097732544},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3202229142189026},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.31149375438690186},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.1542338728904724},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13597679138183594},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1337776780128479},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.12753859162330627}],"concepts":[{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.7010974884033203},{"id":"https://openalex.org/C106192678","wikidata":"https://www.wikidata.org/wiki/Q1419761","display_name":"Collinearity","level":2,"score":0.6493932008743286},{"id":"https://openalex.org/C32220436","wikidata":"https://www.wikidata.org/wiki/Q2072214","display_name":"Personalized medicine","level":2,"score":0.640580952167511},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6287086606025696},{"id":"https://openalex.org/C192943249","wikidata":"https://www.wikidata.org/wiki/Q1893382","display_name":"Stratification (seeds)","level":5,"score":0.616021990776062},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5634532570838928},{"id":"https://openalex.org/C166976648","wikidata":"https://www.wikidata.org/wiki/Q7229824","display_name":"Population stratification","level":5,"score":0.5026323795318604},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.4777614176273346},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.4737492501735687},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4629790186882019},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4248011112213135},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3833804130554199},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.36913520097732544},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3202229142189026},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.31149375438690186},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.1542338728904724},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13597679138183594},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1337776780128479},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.12753859162330627},{"id":"https://openalex.org/C88548481","wikidata":"https://www.wikidata.org/wiki/Q2397491","display_name":"Seed dormancy","level":4,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0},{"id":"https://openalex.org/C3527866","wikidata":"https://www.wikidata.org/wiki/Q162267","display_name":"Dormancy","level":3,"score":0.0},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C100701293","wikidata":"https://www.wikidata.org/wiki/Q193838","display_name":"Germination","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1012656","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012656","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:39671459","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39671459","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11676920","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11676920","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11676920/pdf/pcbi.1012656.pdf","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":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:RePEc:plo:pcbi00:1012656","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012656","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:b2a35925701246e3b3d45c2e86e5a2fa","is_oa":false,"landing_page_url":"https://doaj.org/article/b2a35925701246e3b3d45c2e86e5a2fa","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 20, Iss 12, p e1012656 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1012656","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012656","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1298552778","display_name":"DECOMPENSATED CIRRHOSIS: IDENTIFICATION OF NEW COMBINATORIAL THERAPIES BASED ON SYSTEMS APPROACHES","funder_award_id":"847949","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G1645179935","display_name":"TimE frame ControL of Inflammation by canonical and non-canonical autophagy to Prevent fatty liver diSease progrEssion","funder_award_id":"ANR-18-CE14-0006","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G5604978010","display_name":"Deciphering HEArt-liVEr commuNication in nonalcohoLic fattY liver disease","funder_award_id":"ANR-22-CE14-0002","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"},{"id":"https://openalex.org/G8538166538","display_name":"Universit\u00e9 de Paris","funder_award_id":"ANR-18-IDEX-0001","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320320893","display_name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","ror":"https://ror.org/02vjkv261"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W1831050183","https://openalex.org/W2016006380","https://openalex.org/W2039202090","https://openalex.org/W2113586398","https://openalex.org/W2406250479","https://openalex.org/W2733722625","https://openalex.org/W2792591449","https://openalex.org/W3021012518","https://openalex.org/W3101477379","https://openalex.org/W4225001630","https://openalex.org/W4291150331","https://openalex.org/W4298826872","https://openalex.org/W4399639731","https://openalex.org/W4400094362","https://openalex.org/W6749426426"],"related_works":["https://openalex.org/W2789741286","https://openalex.org/W3082935376","https://openalex.org/W3000456868","https://openalex.org/W4399651953","https://openalex.org/W4386960999","https://openalex.org/W2899657781","https://openalex.org/W4322484660","https://openalex.org/W3193951088","https://openalex.org/W4388011470","https://openalex.org/W4230423494"],"abstract_inverted_index":{"In":[0,137],"the":[1,43,79],"era":[2],"of":[3,89,113],"precision":[4],"medicine,":[5],"it":[6],"is":[7,40,140],"necessary":[8],"to":[9,17,73],"understand":[10],"heterogeneity":[11],"among":[12],"patients":[13],"with":[14],"complex":[15],"diseases":[16],"improve":[18],"personalized":[19,148],"prevention":[20],"and":[21,64,100,105,129],"management":[22],"strategies.":[23],"Here,":[24],"we":[25],"introduce":[26],"ClustAll,":[27,47],"a":[28,48,141],"Bioconductor":[29],"package":[30],"designed":[31],"for":[32,96,103,144],"unsupervised":[33],"patient":[34,76,127,145],"stratification":[35,128,146],"using":[36,118],"clinical":[37,56,109,121,135],"data.":[38],"ClustAll":[39,67,90,114,139],"based":[41],"on":[42,134],"previously":[44],"validated":[45,117],"methodology":[46],"clustering":[49],"framework":[50],"that":[51],"effectively":[52],"handles":[53],"intricacies":[54],"in":[55,70,126,147],"data,":[57],"including":[58],"mixed":[59],"data":[60],"types,":[61],"missing":[62],"values,":[63],"collinearity.":[65],"Additionally,":[66],"stands":[68],"out":[69],"its":[71,124,131],"ability":[72],"identify":[74],"multiple":[75],"stratifications":[77,107],"within":[78],"same":[80],"population":[81],"while":[82],"ensuring":[83],"their":[84],"robustness.":[85],"The":[86,111],"updated":[87],"implementation":[88],"features":[91],"S4":[92],"classes,":[93],"parallel":[94],"computing":[95],"enhanced":[97],"computational":[98],"efficiency,":[99],"user-friendly":[101],"tools":[102],"exploring":[104],"comparing":[106],"against":[108],"phenotypes.":[110],"performance":[112],"has":[115],"been":[116],"two":[119],"public":[120],"datasets,":[122],"confirming":[123],"effectiveness":[125],"highlighting":[130],"potential":[132],"impact":[133],"management.":[136],"summary,":[138],"powerful":[142],"tool":[143],"medicine.":[149]},"counts_by_year":[],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}