{"id":"https://openalex.org/W7131778796","doi":"https://doi.org/10.1186/s12859-026-06400-8","title":"DynaBiome: interpretable unsupervised learning of gut microbiome dysbiosis via temporal deep models","display_name":"DynaBiome: interpretable unsupervised learning of gut microbiome dysbiosis via temporal deep models","publication_year":2026,"publication_date":"2026-02-27","ids":{"openalex":"https://openalex.org/W7131778796","doi":"https://doi.org/10.1186/s12859-026-06400-8","pmid":"https://pubmed.ncbi.nlm.nih.gov/41761093"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-026-06400-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06400-8","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC 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/10.1186/s12859-026-06400-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5124731363","display_name":"Awais Qureshi","orcid":null},"institutions":[{"id":"https://openalex.org/I929597975","display_name":"National University of Sciences and Technology","ror":"https://ror.org/03w2j5y17","country_code":"PK","type":"education","lineage":["https://openalex.org/I929597975"]}],"countries":["PK"],"is_corresponding":true,"raw_author_name":"Awais Qureshi","raw_affiliation_strings":["School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan. aqureshi.dphd19seecs@seecs.edu.pk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan. aqureshi.dphd19seecs@seecs.edu.pk","institution_ids":["https://openalex.org/I929597975"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126958631","display_name":"Abdul Wahid","orcid":null},"institutions":[{"id":"https://openalex.org/I132806614","display_name":"University of Dubai","ror":"https://ror.org/05h0z7c09","country_code":"AE","type":"education","lineage":["https://openalex.org/I132806614"]}],"countries":["AE"],"is_corresponding":true,"raw_author_name":"Abdul Wahid","raw_affiliation_strings":["School of Computer Science, University of Birmingham, Dubai, UAE. a.wahid@bham.ac.uk"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of Birmingham, Dubai, UAE. a.wahid@bham.ac.uk","institution_ids":["https://openalex.org/I132806614"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126961109","display_name":"Shams Qazi","orcid":null},"institutions":[{"id":"https://openalex.org/I929597975","display_name":"National University of Sciences and Technology","ror":"https://ror.org/03w2j5y17","country_code":"PK","type":"education","lineage":["https://openalex.org/I929597975"]}],"countries":["PK"],"is_corresponding":false,"raw_author_name":"Shams Qazi","raw_affiliation_strings":["School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan","institution_ids":["https://openalex.org/I929597975"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126956434","display_name":"Muhammad K. Shahzad","orcid":null},"institutions":[{"id":"https://openalex.org/I929597975","display_name":"National University of Sciences and Technology","ror":"https://ror.org/03w2j5y17","country_code":"PK","type":"education","lineage":["https://openalex.org/I929597975"]}],"countries":["PK"],"is_corresponding":false,"raw_author_name":"Muhammad K. Shahzad","raw_affiliation_strings":["School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan","institution_ids":["https://openalex.org/I929597975"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000798302","display_name":"Hashir Moheed Kiani","orcid":"https://orcid.org/0009-0006-4998-8824"},"institutions":[{"id":"https://openalex.org/I929597975","display_name":"National University of Sciences and Technology","ror":"https://ror.org/03w2j5y17","country_code":"PK","type":"education","lineage":["https://openalex.org/I929597975"]}],"countries":["PK"],"is_corresponding":false,"raw_author_name":"Hashir Moheed Kiani","raw_affiliation_strings":["School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan","institution_ids":["https://openalex.org/I929597975"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083460237","display_name":"Muhammad Asif","orcid":"https://orcid.org/0000-0003-1839-2527"},"institutions":[{"id":"https://openalex.org/I929597975","display_name":"National University of Sciences and Technology","ror":"https://ror.org/03w2j5y17","country_code":"PK","type":"education","lineage":["https://openalex.org/I929597975"]}],"countries":["PK"],"is_corresponding":false,"raw_author_name":"Muhammad Daud Abdullah Asif","raw_affiliation_strings":["School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Islamabad, 44500, Pakistan","institution_ids":["https://openalex.org/I929597975"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5124731363","https://openalex.org/A5126958631"],"corresponding_institution_ids":["https://openalex.org/I132806614","https://openalex.org/I929597975"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":3.209,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.88176974,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"27","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.8496999740600586,"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/T10066","display_name":"Gut microbiota and health","score":0.8496999740600586,"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/T11288","display_name":"Clostridium difficile and Clostridium perfringens research","score":0.019999999552965164,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T13702","display_name":"Machine Learning in Healthcare","score":0.014999999664723873,"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/autoencoder","display_name":"Autoencoder","score":0.732699990272522},{"id":"https://openalex.org/keywords/microbiome","display_name":"Microbiome","score":0.5989999771118164},{"id":"https://openalex.org/keywords/unsupervised-learning","display_name":"Unsupervised learning","score":0.5985999703407288},{"id":"https://openalex.org/keywords/dysbiosis","display_name":"Dysbiosis","score":0.5263000130653381},{"id":"https://openalex.org/keywords/anomaly-detection","display_name":"Anomaly detection","score":0.48649999499320984},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4724000096321106},{"id":"https://openalex.org/keywords/ensemble-learning","display_name":"Ensemble learning","score":0.46630001068115234},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4494999945163727},{"id":"https://openalex.org/keywords/supervised-learning","display_name":"Supervised learning","score":0.426800012588501}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7598999738693237},{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.732699990272522},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.6786999702453613},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6449999809265137},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.5989999771118164},{"id":"https://openalex.org/C8038995","wikidata":"https://www.wikidata.org/wiki/Q1152135","display_name":"Unsupervised learning","level":2,"score":0.5985999703407288},{"id":"https://openalex.org/C2777165150","wikidata":"https://www.wikidata.org/wiki/Q269334","display_name":"Dysbiosis","level":3,"score":0.5263000130653381},{"id":"https://openalex.org/C739882","wikidata":"https://www.wikidata.org/wiki/Q3560506","display_name":"Anomaly detection","level":2,"score":0.48649999499320984},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4724000096321106},{"id":"https://openalex.org/C45942800","wikidata":"https://www.wikidata.org/wiki/Q245652","display_name":"Ensemble learning","level":2,"score":0.46630001068115234},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4494999945163727},{"id":"https://openalex.org/C136389625","wikidata":"https://www.wikidata.org/wiki/Q334384","display_name":"Supervised learning","level":3,"score":0.426800012588501},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.4169999957084656},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.4156999886035919},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37779998779296875},{"id":"https://openalex.org/C119898033","wikidata":"https://www.wikidata.org/wiki/Q3433888","display_name":"Ensemble forecasting","level":2,"score":0.3668000102043152},{"id":"https://openalex.org/C59404180","wikidata":"https://www.wikidata.org/wiki/Q17013334","display_name":"Feature learning","level":2,"score":0.3499000072479248},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.3345000147819519},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.32260000705718994},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.30869999527931213},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.3034000098705292},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29760000109672546},{"id":"https://openalex.org/C2776879701","wikidata":"https://www.wikidata.org/wiki/Q25048660","display_name":"Multiple kernel learning","level":4,"score":0.2973000109195709},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.2872999906539917},{"id":"https://openalex.org/C70518039","wikidata":"https://www.wikidata.org/wiki/Q16000077","display_name":"Dimensionality reduction","level":2,"score":0.2858000099658966},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2822999954223633},{"id":"https://openalex.org/C45804977","wikidata":"https://www.wikidata.org/wiki/Q7239673","display_name":"Predictive modelling","level":2,"score":0.2800999879837036},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.273499995470047},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.27309998869895935},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.26930001378059387},{"id":"https://openalex.org/C151956035","wikidata":"https://www.wikidata.org/wiki/Q1132755","display_name":"Logistic regression","level":2,"score":0.26100000739097595},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.257999986410141}],"mesh":[{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069558","descriptor_name":"Unsupervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000098406","descriptor_name":"Ensemble Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098406","descriptor_name":"Ensemble Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098417","descriptor_name":"Long Short Term Memory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098417","descriptor_name":"Long Short Term Memory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","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":"D064806","descriptor_name":"Dysbiosis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D064806","descriptor_name":"Dysbiosis","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D064806","descriptor_name":"Dysbiosis","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":true},{"descriptor_ui":"D064806","descriptor_name":"Dysbiosis","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-026-06400-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06400-8","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41761093","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41761093","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pure.atira.dk:openaire/863b0cfc-903e-4c86-abea-a625b978a2b6","is_oa":true,"landing_page_url":"https://research.birmingham.ac.uk/en/publications/863b0cfc-903e-4c86-abea-a625b978a2b6","pdf_url":null,"source":{"id":"https://openalex.org/S4306402634","display_name":"University of Birmingham Research Portal (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Qureshi, A, Wahid, A, Qazi, S, Shahzad, M K, Kiani, H M & Asif, M D A 2026, 'DynaBiome : interpretable unsupervised learning of gut microbiome dysbiosis via temporal deep models', BMC Bioinformatics, vol. 27, no. 1, 71. https://doi.org/10.1186/s12859-026-06400-8","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pubmedcentral.nih.gov:13023179","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13023179/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13023179/pdf/12859_2026_Article_6400.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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:5aa7abf5ee4b44128817dbf4c8b41da2","is_oa":true,"landing_page_url":"https://doaj.org/article/5aa7abf5ee4b44128817dbf4c8b41da2","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":"BMC Bioinformatics, Vol 27, Iss 1 (2026)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s12859-026-06400-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06400-8","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5335897207260132,"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W1930591173","https://openalex.org/W2343597029","https://openalex.org/W2755016301","https://openalex.org/W2911884040","https://openalex.org/W2952261006","https://openalex.org/W2953583829","https://openalex.org/W3095427065","https://openalex.org/W3133751545","https://openalex.org/W3175203932","https://openalex.org/W3175516073","https://openalex.org/W3189197085","https://openalex.org/W3192991808","https://openalex.org/W3194565621","https://openalex.org/W3200063015","https://openalex.org/W4224218865","https://openalex.org/W4280521658","https://openalex.org/W4281905638","https://openalex.org/W4282596589","https://openalex.org/W4307607695","https://openalex.org/W4308102349","https://openalex.org/W4310696458","https://openalex.org/W4319825949","https://openalex.org/W4367059499","https://openalex.org/W4380049486","https://openalex.org/W4380894077","https://openalex.org/W4383875372","https://openalex.org/W4390347769","https://openalex.org/W4392878377","https://openalex.org/W4396583640","https://openalex.org/W4396741298","https://openalex.org/W4402130986","https://openalex.org/W4403484642","https://openalex.org/W4404137766","https://openalex.org/W4404225848","https://openalex.org/W4404325876","https://openalex.org/W4406717199"],"related_works":[],"abstract_inverted_index":{"PURPOSE:":[0],"Gut":[1],"microbiome":[2,71,80],"dysbiosis":[3,43,231],"is":[4],"a":[5,37,53,102,170,227],"critical":[6],"determinant":[7],"for":[8,230,255],"autologous":[9],"fecal":[10],"microbiota":[11],"transplantation":[12],"(Auto-FMT)":[13],"eligibility,":[14],"yet":[15],"current":[16],"classification":[17,129],"approaches":[18],"rely":[19],"predominantly":[20],"on":[21,251],"supervised":[22,207,245],"learning":[23,47,123,148],"with":[24,163,222],"manually":[25],"annotated":[26],"sequencing":[27],"labels,":[28],"which":[29],"are":[30],"often":[31],"scarce.":[32],"This":[33,175],"study":[34],"proposes":[35],"DynaBiome,":[36],"framework":[38,62,229],"designed":[39],"to":[40,56,68,127,143,205],"predict":[41],"gut":[42],"by":[44],"leveraging":[45,237],"unsupervised":[46,218],"and":[48,93,121,169],"clinical":[49],"phenotypic":[50,112,238],"proxies":[51],"as":[52],"scalable":[54],"alternative":[55],"ground-truth":[57],"genomic":[58],"labeling.":[59],"METHODS:":[60],"Our":[61],"employs":[63],"an":[64,164],"LSTM":[65,134],"autoencoder":[66,135],"architecture":[67],"capture":[69],"temporal":[70,192,219],"dynamics":[72],"within":[73],"14-day":[74],"windows.":[75],"The":[76,132,153],"model":[77,200],"reconstructs":[78],"normal":[79],"patterns,":[81],"where":[82],"high":[83],"reconstruction":[84],"errors":[85],"signal":[86],"potential":[87],"dysbiosis.":[88],"To":[89],"ensure":[90],"rigorous":[91],"evaluation":[92],"prevent":[94],"data":[95],"leakage,":[96],"the":[97,179,188,199,210,213,249],"dataset":[98],"was":[99],"partitioned":[100],"via":[101,111,118,239],"strict":[103],"patient-level":[104],"split.":[105],"Unsupervised":[106],"anomaly":[107,196],"signals":[108],"were":[109,125],"refined":[110],"proxy":[113],"labels":[114],"(e.g.,":[115],"fever,":[116],"neutropenia)":[117],"weak":[119,240],"supervision,":[120],"ensemble":[122,155,224],"methods":[124,225],"applied":[126],"optimize":[128],"performance.":[130],"RESULTS:":[131],"initial":[133],"successfully":[136],"flagged":[137],"dysbiotic":[138],"sequences":[139],"but":[140],"required":[141],"refinement":[142],"reduce":[144],"false":[145],"positives.":[146],"Ensemble":[147],"significantly":[149,177],"enhanced":[150],"predictive":[151],"accuracy.":[152],"stacked":[154,223],"(with":[156],"Logistic":[157],"Regression":[158],"meta-learner)":[159],"demonstrated":[160],"optimal":[161],"performance":[162,202],"ROC":[165],"AUC":[166,185],"of":[167,173,190,212],"0.8908":[168],"Weighted":[171],"F1-score":[172],"0.7909.":[174],"approach":[176],"outperformed":[178],"standard":[180],"One-Class":[181],"SVM":[182],"baseline":[183],"(ROC":[184],"0.6033),":[186],"confirming":[187,209],"superiority":[189],"deep":[191],"modeling":[193],"over":[194],"static":[195],"detection.":[197],"Critically,":[198],"achieved":[201],"levels":[203],"comparable":[204],"fully":[206],"baselines,":[208,246],"efficacy":[211],"proxy-label":[214],"framework.":[215],"CONCLUSION:":[216],"Integrating":[217],"feature":[220],"extraction":[221],"provides":[226],"viable":[228],"prediction.":[232],"These":[233],"results":[234],"demonstrate":[235],"that":[236],"supervision":[241],"can":[242],"effectively":[243],"approximate":[244],"thereby":[247],"reducing":[248],"reliance":[250],"comprehensive":[252],"metagenomic":[253],"annotations":[254],"longitudinal":[256],"patient":[257],"monitoring.":[258]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2026-02-27T00:00:00"}
