{"id":"https://openalex.org/W4415407820","doi":"https://doi.org/10.1093/bib/bbaf558","title":"SysML: adaptive recommendation system for heterogeneous biomedical data preprocessing and modeling workflows","display_name":"SysML: adaptive recommendation system for heterogeneous biomedical data preprocessing and modeling workflows","publication_year":2025,"publication_date":"2025-08-31","ids":{"openalex":"https://openalex.org/W4415407820","doi":"https://doi.org/10.1093/bib/bbaf558","pmid":"https://pubmed.ncbi.nlm.nih.gov/41115212"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf558","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbaf558","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101840434","display_name":"Jinhui Zhao","orcid":"https://orcid.org/0000-0002-3584-3572"},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinhui Zhao","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101552461","display_name":"Xinjie Zhao","orcid":"https://orcid.org/0000-0002-1963-2126"},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xinjie Zhao","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100750958","display_name":"Chunxia Zhao","orcid":"https://orcid.org/0000-0001-9451-1052"},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chunxia Zhao","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Ying Zhao","orcid":null},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying Zhao","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001405633","display_name":"Xin Lu","orcid":"https://orcid.org/0000-0001-5569-1740"},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xin Lu","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":"https://orcid.org/0000-0001-5569-1740","affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031458824","display_name":"Guowang Xu","orcid":"https://orcid.org/0000-0003-4298-3554"},"institutions":[{"id":"https://openalex.org/I180585399","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54","country_code":"CN","type":"facility","lineage":["https://openalex.org/I180585399","https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Guowang Xu","raw_affiliation_strings":["Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning Province Key Laboratory of Metabolomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023 ,","institution_ids":["https://openalex.org/I180585399"]},{"raw_affiliation_string":"State Key Laboratory of Medical Proteomics, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning 116023, P.R. China","institution_ids":["https://openalex.org/I180585399"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5001405633","https://openalex.org/A5031458824"],"corresponding_institution_ids":["https://openalex.org/I180585399"],"apc_list":{"value":3885,"currency":"USD","value_usd":3885},"apc_paid":{"value":3885,"currency":"USD","value_usd":3885},"fwci":2.4121,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.91331088,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":"26","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10703","display_name":"Business Process Modeling and Analysis","score":0.9258999824523926,"subfield":{"id":"https://openalex.org/subfields/1404","display_name":"Management Information Systems"},"field":{"id":"https://openalex.org/fields/14","display_name":"Business, Management and Accounting"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T10703","display_name":"Business Process Modeling and Analysis","score":0.9258999824523926,"subfield":{"id":"https://openalex.org/subfields/1404","display_name":"Management Information Systems"},"field":{"id":"https://openalex.org/fields/14","display_name":"Business, Management and Accounting"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9158999919891357,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9049000144004822,"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/workflow","display_name":"Workflow","score":0.63919997215271},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.6365000009536743},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5667999982833862},{"id":"https://openalex.org/keywords/missing-data","display_name":"Missing data","score":0.5393000245094299},{"id":"https://openalex.org/keywords/data-pre-processing","display_name":"Data pre-processing","score":0.4684000015258789},{"id":"https://openalex.org/keywords/boosting","display_name":"Boosting (machine learning)","score":0.43529999256134033},{"id":"https://openalex.org/keywords/recommender-system","display_name":"Recommender system","score":0.4268999993801117},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.3962000012397766}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8305000066757202},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.63919997215271},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.6365000009536743},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.6301000118255615},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5667999982833862},{"id":"https://openalex.org/C9357733","wikidata":"https://www.wikidata.org/wiki/Q6878417","display_name":"Missing data","level":2,"score":0.5393000245094299},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5123999714851379},{"id":"https://openalex.org/C10551718","wikidata":"https://www.wikidata.org/wiki/Q5227332","display_name":"Data pre-processing","level":2,"score":0.4684000015258789},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.448199987411499},{"id":"https://openalex.org/C46686674","wikidata":"https://www.wikidata.org/wiki/Q466303","display_name":"Boosting (machine learning)","level":2,"score":0.43529999256134033},{"id":"https://openalex.org/C557471498","wikidata":"https://www.wikidata.org/wiki/Q554950","display_name":"Recommender system","level":2,"score":0.4268999993801117},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.3962000012397766},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.2971999943256378},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.28999999165534973},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.2870999872684479},{"id":"https://openalex.org/C69738355","wikidata":"https://www.wikidata.org/wiki/Q1228929","display_name":"Linear discriminant analysis","level":2,"score":0.2840000092983246},{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.2838999927043915},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.26570001244544983},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.2653000056743622},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.2599000036716461},{"id":"https://openalex.org/C198531522","wikidata":"https://www.wikidata.org/wiki/Q485146","display_name":"Sample (material)","level":2,"score":0.25690001249313354},{"id":"https://openalex.org/C2781395549","wikidata":"https://www.wikidata.org/wiki/Q4680762","display_name":"Adaptive sampling","level":3,"score":0.2508000135421753}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"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":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf558","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41115212","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41115212","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":"Briefings in bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:11344679","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12536875","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12536875/pdf/bbaf558.pdf","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf558","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf558","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4351210934","display_name":null,"funder_award_id":"22274153","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G614732774","display_name":null,"funder_award_id":"DICP I202334","funder_id":"https://openalex.org/F4320334825","funder_display_name":"Dalian Institute of Chemical Physics"},{"id":"https://openalex.org/G6185897421","display_name":null,"funder_award_id":"22434006","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G683799650","display_name":null,"funder_award_id":"DNL-YL A202202","funder_id":"https://openalex.org/F4320338190","funder_display_name":"Dalian National Laboratory for Clean Energy"},{"id":"https://openalex.org/G7307749321","display_name":null,"funder_award_id":"I202334","funder_id":"https://openalex.org/F4320334825","funder_display_name":"Dalian Institute of Chemical Physics"},{"id":"https://openalex.org/G7832354995","display_name":null,"funder_award_id":"22274151","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8595179794","display_name":null,"funder_award_id":"and 22374149","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8804542409","display_name":null,"funder_award_id":"22374149","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320334825","display_name":"Dalian Institute of Chemical Physics","ror":"https://ror.org/00prkya54"},{"id":"https://openalex.org/F4320338190","display_name":"Dalian National Laboratory for Clean Energy","ror":"https://ror.org/04b7wbe03"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W2149360212","https://openalex.org/W2908465383","https://openalex.org/W3009943557","https://openalex.org/W3045373701","https://openalex.org/W3080719725","https://openalex.org/W3089576524","https://openalex.org/W3124089710","https://openalex.org/W3138659230","https://openalex.org/W3146345129","https://openalex.org/W3157400911","https://openalex.org/W3170657538","https://openalex.org/W3200707343","https://openalex.org/W3204312334","https://openalex.org/W4229442782","https://openalex.org/W4280544218","https://openalex.org/W4285496636","https://openalex.org/W4291023040","https://openalex.org/W4313888282","https://openalex.org/W4376959749","https://openalex.org/W4382516982","https://openalex.org/W4383621844","https://openalex.org/W4386594084","https://openalex.org/W4387318217","https://openalex.org/W4388713550","https://openalex.org/W4389049458","https://openalex.org/W4402973920"],"related_works":[],"abstract_inverted_index":{"The":[0],"rapid":[1],"growth":[2],"of":[3,32,62,128],"high-dimensional":[4],"omics":[5],"datasets":[6],"in":[7,98,114,173,202],"biomedical":[8,68,168],"research":[9],"has":[10],"created":[11],"an":[12],"urgent":[13],"need":[14],"for":[15,194],"computational":[16],"frameworks":[17],"that":[18,83,156,183],"are":[19,37],"both":[20,51,174],"robust":[21,134],"and":[22,35,53,77,92,102,124,177,197],"adaptable":[23],"to":[24,45],"diverse":[25],"data":[26,69,185],"complexities.":[27],"Although":[28],"a":[29,153],"wide":[30],"range":[31],"specialized":[33],"tools":[34],"algorithms":[36],"available,":[38],"researchers":[39],"often":[40],"rely":[41],"on":[42,161,165],"trial-and-error":[43],"approaches":[44],"select":[46],"suitable":[47],"analytical":[48],"workflows,":[49],"compromising":[50],"efficiency":[52],"reproducibility.":[54],"In":[55],"this":[56],"study,":[57],"we":[58,150],"systematically":[59],"benchmarked":[60],"hundreds":[61],"algorithms-preprocessing":[63],"combinations":[64],"across":[65],"three":[66],"common":[67],"challenges,":[70],"including":[71],"small":[72],"sample":[73],"sizes,":[74],"missing":[75],"values,":[76],"class":[78],"imbalance.":[79],"Our":[80,180],"results":[81],"show":[82],"tree-based":[84],"models":[85],"(e.g.":[86],"Gradient":[87],"Boosting":[88],"Decision":[89],"Tree,":[90],"XGBoost,":[91],"Random":[93],"Forest)":[94],"consistently":[95],"perform":[96],"well":[97],"scenarios":[99],"involving":[100],"small-sample":[101],"missing-data,":[103],"while":[104],"partial":[105],"least":[106],"squares":[107],"discriminant":[108],"analysis":[109],"(PLS-DA)":[110],"is":[111,192],"more":[112],"effective":[113],"addressing":[115],"imbalanced":[116],"classes.":[117],"Unsupervised":[118],"cluster":[119],"methods":[120],"such":[121],"as":[122],"K-means":[123],"Density-Based":[125],"Spatial":[126],"Clustering":[127],"Applications":[129],"with":[130],"Noise":[131],"(DBSCAN)":[132],"remain":[133],"under":[135],"moderate":[136],"missingness,":[137],"but":[138],"their":[139],"performance":[140,176],"declines":[141],"when":[142],"missingness":[143],"exceeds":[144],"10%.":[145],"To":[146],"support":[147],"data-driven":[148],"decision-making,":[149],"developed":[151],"SysML,":[152],"web-based":[154],"platform":[155],"recommends":[157],"data-adaptive":[158],"workflows":[159],"based":[160],"dataset-specific":[162],"characteristics.":[163],"Validated":[164],"multiple":[166],"real-world":[167],"datasets,":[169],"SysML":[170],"demonstrated":[171],"improvements":[172],"model":[175],"workflow":[178],"efficiency.":[179],"findings":[181],"underscore":[182],"adaptive":[184],"preprocessing,":[186],"rather":[187],"than":[188],"algorithm":[189],"choice":[190],"alone,":[191],"critical":[193],"achieving":[195],"reliable":[196],"reproducible":[198],"machine":[199],"learning":[200],"applications":[201],"biomedicine.":[203]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-22T00:00:00"}
