{"id":"https://openalex.org/W7214799024","doi":"https://doi.org/10.64898/2026.09.23.753348","title":"Inferring cascade drivers of VEXAS syndrome by a causal machine learning tool CauNagi","display_name":"Inferring cascade drivers of VEXAS syndrome by a causal machine learning tool CauNagi","publication_year":2026,"publication_date":"2026-09-29","ids":{"openalex":"https://openalex.org/W7214799024","doi":"https://doi.org/10.64898/2026.09.23.753348"},"language":"en","primary_location":{"id":"doi:10.64898/2026.09.23.753348","doi":"https://doi.org/10.64898/2026.09.23.753348","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.23.753348","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/29/2026.09.23.753348.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/29/2026.09.23.753348.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111192225","display_name":"Dengyi Bao","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4391768267","display_name":"State Key Laboratory of Experimental Hematology","ror":"https://ror.org/0093mkr06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4391768267"]},{"id":"https://openalex.org/I5740404","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89","country_code":"CN","type":"education","lineage":["https://openalex.org/I5740404"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dengyi Bao","raw_affiliation_strings":["Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I4391768267","https://openalex.org/I5740404"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103255554","display_name":"Han Yao","orcid":"https://orcid.org/0000-0002-6175-8072","observed_orcids":["https://orcid.org/0000-0002-6175-8072"]},"institutions":[{"id":"https://openalex.org/I4391768267","display_name":"State Key Laboratory of Experimental Hematology","ror":"https://ror.org/0093mkr06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4391768267"]},{"id":"https://openalex.org/I5740404","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89","country_code":"CN","type":"education","lineage":["https://openalex.org/I5740404"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Han Yao","raw_affiliation_strings":["Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I4391768267","https://openalex.org/I5740404"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134424382","display_name":"Jingjing Liu","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I5740404","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89","country_code":"CN","type":"education","lineage":["https://openalex.org/I5740404"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingjing Liu","raw_affiliation_strings":["Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I5740404"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5153008657","display_name":"Ge Dong","orcid":"https://orcid.org/0009-0009-2222-5992","observed_orcids":["https://orcid.org/0009-0009-2222-5992"]},"institutions":[{"id":"https://openalex.org/I5740404","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89","country_code":"CN","type":"education","lineage":["https://openalex.org/I5740404"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ge Dong","raw_affiliation_strings":["Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I5740404"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5153498454","display_name":"Shuqian Xu","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I154099455","display_name":"Shandong University","ror":"https://ror.org/0207yh398","country_code":"CN","type":"education","lineage":["https://openalex.org/I154099455"]},{"id":"https://openalex.org/I4210161528","display_name":"Qilu Hospital of Shandong University","ror":"https://ror.org/056ef9489","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210161528"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuqian Xu","raw_affiliation_strings":["Department of Hematology, Qilu Hospital of Shandong University, Jinan, Shandong, People\u2019s Republic of China","Shandong Provincial Clinical Research Center for Hematological Diseases, Shandong Key Laboratory of Hematological Diseases and Immune Microenvironment, Jinan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Hematology, Qilu Hospital of Shandong University, Jinan, Shandong, People\u2019s Republic of China","institution_ids":["https://openalex.org/I154099455","https://openalex.org/I4210161528"]},{"raw_affiliation_string":"Shandong Provincial Clinical Research Center for Hematological Diseases, Shandong Key Laboratory of Hematological Diseases and Immune Microenvironment, Jinan, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101460247","display_name":"Zhigang Cai","orcid":"https://orcid.org/0009-0003-2416-9951","observed_orcids":["https://orcid.org/0009-0003-2416-9951"]},"institutions":[{"id":"https://openalex.org/I4391768267","display_name":"State Key Laboratory of Experimental Hematology","ror":"https://ror.org/0093mkr06","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4391768267"]},{"id":"https://openalex.org/I5740404","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89","country_code":"CN","type":"education","lineage":["https://openalex.org/I5740404"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zhigang Cai","raw_affiliation_strings":["Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China"],"raw_orcid":"https://orcid.org/0009-0003-2416-9951","affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, State Key Laboratory of Experimental Hematology, Tianjin Key Laboratory of Inflammatory Biology, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I4391768267","https://openalex.org/I5740404"]},{"raw_affiliation_string":"Department of Pharmacology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, School of Basic Medical Science, Tianjin Medical University, Tianjin, China","institution_ids":["https://openalex.org/I5740404"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5101460247"],"corresponding_institution_ids":["https://openalex.org/I4391768267","https://openalex.org/I5740404"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9491999745368958,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9491999745368958,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.008799999952316284,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0066999997943639755,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/vexas-syndrome","display_name":"VEXAS syndrome","score":0.9929999709129333},{"id":"https://openalex.org/keywords/uba1-somatic-mutation","display_name":"UBA1 somatic mutation","score":0.8149999976158142},{"id":"https://openalex.org/keywords/autoinflammatory-disease","display_name":"autoinflammatory disease","score":0.8989999890327454},{"id":"https://openalex.org/keywords/causal-machine-learning","display_name":"causal machine learning","score":0.49300000071525574},{"id":"https://openalex.org/keywords/single-cell-transcriptomics","display_name":"single-cell transcriptomics","score":0.7049999833106995},{"id":"https://openalex.org/keywords/pu-1","display_name":"PU.1","score":0.6340000033378601},{"id":"https://openalex.org/keywords/nfkb1","display_name":"NFKB1","score":0.9779999852180481},{"id":"https://openalex.org/keywords/stat3","display_name":"STAT3","score":0.9919999837875366},{"id":"https://openalex.org/keywords/fos","display_name":"FOS","score":0.9769999980926514},{"id":"https://openalex.org/keywords/endoplasmic-reticulum-stress","display_name":"endoplasmic reticulum stress","score":0.9300000071525574},{"id":"https://openalex.org/keywords/myeloid-bias","display_name":"myeloid bias","score":0.5950000286102295}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5913000106811523},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.574999988079071},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5512999892234802},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5371999740600586},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5357000231742859},{"id":"https://openalex.org/C59404180","wikidata":"https://www.wikidata.org/wiki/Q17013334","display_name":"Feature learning","level":2,"score":0.4341000020503998},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.43320000171661377},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.42899999022483826},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.38510000705718994},{"id":"https://openalex.org/C2779282312","wikidata":"https://www.wikidata.org/wiki/Q1956561","display_name":"Myeloid","level":2,"score":0.38100001215934753},{"id":"https://openalex.org/C2994430510","wikidata":"https://www.wikidata.org/wiki/Q3270846","display_name":"Myeloid cells","level":3,"score":0.3450999855995178},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.33550000190734863},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.314300000667572},{"id":"https://openalex.org/C2777735758","wikidata":"https://www.wikidata.org/wiki/Q817765","display_name":"Path (computing)","level":2,"score":0.313400000333786},{"id":"https://openalex.org/C11671645","wikidata":"https://www.wikidata.org/wiki/Q5054567","display_name":"Causal model","level":2,"score":0.2973000109195709},{"id":"https://openalex.org/C168167062","wikidata":"https://www.wikidata.org/wiki/Q1117970","display_name":"Component (thermodynamics)","level":2,"score":0.2919999957084656},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.27239999175071716},{"id":"https://openalex.org/C32220436","wikidata":"https://www.wikidata.org/wiki/Q2072214","display_name":"Personalized medicine","level":2,"score":0.26660001277923584},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.2662999927997589},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.2621999979019165},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.26190000772476196}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.64898/2026.09.23.753348","doi":"https://doi.org/10.64898/2026.09.23.753348","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.23.753348","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/29/2026.09.23.753348.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.64898/2026.09.23.753348","doi":"https://doi.org/10.64898/2026.09.23.753348","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.23.753348","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/29/2026.09.23.753348.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.9391000270843506}],"study_designs":[],"awards":[{"id":"https://openalex.org/G5339496806","display_name":null,"funder_award_id":"82371789","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7507784590","display_name":null,"funder_award_id":"82170173","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/F4320326234","display_name":"Tianjin Medical University","ror":"https://ror.org/02mh8wx89"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7214799024.pdf","grobid_xml":"https://content.openalex.org/works/W7214799024.grobid-xml"},"referenced_works_count":67,"referenced_works":["https://openalex.org/W1255676896","https://openalex.org/W1529003705","https://openalex.org/W1971937094","https://openalex.org/W1977603207","https://openalex.org/W1980860344","https://openalex.org/W2066636486","https://openalex.org/W2091660633","https://openalex.org/W2100980426","https://openalex.org/W2116041602","https://openalex.org/W2130410032","https://openalex.org/W2132173287","https://openalex.org/W2146849272","https://openalex.org/W2399184178","https://openalex.org/W2616922646","https://openalex.org/W2741508285","https://openalex.org/W2747877289","https://openalex.org/W2782454362","https://openalex.org/W2784395700","https://openalex.org/W2785091318","https://openalex.org/W2790413060","https://openalex.org/W2889326414","https://openalex.org/W2896480326","https://openalex.org/W2897249806","https://openalex.org/W2900205062","https://openalex.org/W2901677030","https://openalex.org/W2910111050","https://openalex.org/W2916458303","https://openalex.org/W2931036699","https://openalex.org/W2948104182","https://openalex.org/W2950372712","https://openalex.org/W2953151710","https://openalex.org/W2965552103","https://openalex.org/W2983166786","https://openalex.org/W2984472267","https://openalex.org/W3081929186","https://openalex.org/W3094287941","https://openalex.org/W3138479716","https://openalex.org/W3164692211","https://openalex.org/W4205263167","https://openalex.org/W4225598893","https://openalex.org/W4307432965","https://openalex.org/W4318896523","https://openalex.org/W4319049324","https://openalex.org/W4319591822","https://openalex.org/W4366606400","https://openalex.org/W4367668965","https://openalex.org/W4378838672","https://openalex.org/W4384198561","https://openalex.org/W4385841273","https://openalex.org/W4387661643","https://openalex.org/W4389234235","https://openalex.org/W4390011121","https://openalex.org/W4391346060","https://openalex.org/W4392168151","https://openalex.org/W4400851391","https://openalex.org/W4402902773","https://openalex.org/W4408996073","https://openalex.org/W4409209758","https://openalex.org/W4410541232","https://openalex.org/W4411497393","https://openalex.org/W4412586869","https://openalex.org/W4413983158","https://openalex.org/W4415790290","https://openalex.org/W4415818372","https://openalex.org/W7127099979","https://openalex.org/W7133222935","https://openalex.org/W7164899877"],"related_works":["https://openalex.org/W4416512364","https://openalex.org/W7164899877","https://openalex.org/W2894525710","https://openalex.org/W7096325328","https://openalex.org/W4310093305","https://openalex.org/W4399472750","https://openalex.org/W4407574615","https://openalex.org/W7171731448","https://openalex.org/W7203838457","https://openalex.org/W7203962985"],"abstract_inverted_index":{"Abstract":[0],"VEXAS":[1,159,224,312,321],"syndrome":[2],"is":[3,261],"an":[4,75,216],"adult-onset":[5],"severe":[6],"autoinflammatory":[7],"disease":[8,175],"caused":[9],"by":[10,215,281],"somatic":[11],"mutations":[12],"in":[13,83,137,186,295,347],"UBA1":[14],",":[15,195],"yet":[16],"the":[17,174,178,342],"cascade":[18,60,277],"mechanisms":[19],"linking":[20,203],"primitive":[21],"hematopoietic":[22,241,285],"abnormalities":[23],"to":[24,99,158,248],"mature":[25],"myeloid":[26,146,170,205,286,336],"dysfunctions":[27],"remain":[28],"largely":[29],"unknown.":[30],"Identifying":[31],"master":[32],"regulators":[33,62,270,279,305],"of":[34,182,293,302,320],"a":[35,38,55,66,91,222,229,316],"progressive":[36,250],"disease,":[37],"black-box":[39],"process,":[40],"from":[41,72,81,221,271,326,341],"complex":[42],"transcriptomic":[43,129,219,256,318],"data":[44],"also":[45,245],"remains":[46],"challenging.":[47],"To":[48,307],"address":[49],"this":[50],"challenge,":[51],"we":[52,314],"developed":[53,346],"CauNagi,":[54],"computational":[56],"framework":[57,234],"for":[58,95,235,252,310],"prioritizing":[59],"candidate":[61,237,278,304],"(CCRs).":[63],"CauNagi":[64,85,108,133,161,183,227,243,260,267,294,309],"integrates":[65,110],"causal":[67,111,189,238],"representation":[68,113,298],"learning":[69,78,114,299],"module":[70,94,181],"derived":[71],"CausCell":[73],"with":[74,90,115,173,191,339],"iterative":[76],"deep":[77],"backbone":[79],"adapted":[80],"UNAGI;":[82],"addition,":[84],"extends":[86],"these":[87],"two":[88],"components":[89],"unique":[92],"downstream":[93],"CCRs":[96,179,334],"analysis":[97,180],"designed":[98],"characterize":[100],"regulatory":[101,124,201],"propagation":[102],"across":[103,335],"hierarchical":[104],"cellular":[105],"states.":[106],"Mechanistically,":[107],"iteratively":[109],"disentangled":[112],"(1)":[116],"disease-stage":[117],"cell-state":[118],"trajectory":[119],"reconstruction":[120],"and":[121,142,169,196,207,232,275,300],"(2)":[122],"dynamic":[123],"analysis.":[125],"Benchmarking":[126],"on":[127],"single-cell":[128,218,255,273,317],"datasets":[130,257],"showed":[131],"that":[132],"preserved":[134],"cell-type":[135],"structure":[136],"idiopathic":[138],"pulmonary":[139],"fibrosis":[140],"(IPF)":[141],"enriched":[143],"known":[144],"acute":[145],"leukemia":[147],"(AML)-":[148],"associated":[149],"genes":[150],"among":[151],"its":[152],"top-ranked":[153],"global":[154,303],"regulators.":[155,239],"When":[156],"applied":[157],"syndrome,":[160,313,322],"readily":[162],"revealed":[163],"inflammatory":[164,208],"responses,":[165],"endoplasmic":[166],"reticulum":[167],"stress,":[168],"bias,":[171],"consistent":[172],"features.":[176],"Furthermore,":[177],"assisted":[184],"us":[185],"identifying":[187,236],"36":[188,332],"drivers,":[190],"SPI1,":[192],"NFKB1,":[193],"STAT3":[194],"FOS":[197],"prioritized":[198],"as":[199],"high-confidence":[200],"hubs":[202],"aberrant":[204],"differentiation":[206,337],"programs.":[209],"These":[210],"findings":[211],"were":[212],"further":[213],"supported":[214],"independent":[217],"dataset":[220],"murine":[223,344],"model.":[225],"Overall,":[226],"provides":[228],"computationally":[230],"efficient":[231],"systematic":[233],"Beyond":[240],"diseases,":[242],"may":[244],"be":[246],"applicable":[247],"other":[249],"disorders":[251],"which":[253],"multistage":[254,272],"are":[258],"available.":[259],"available":[262],"at":[263],"https://github.com/steamed-stuffedbun/CauNagi":[264],".":[265],"Highlights":[266],"identifies":[268],"disease-progression":[269],"transcriptomes":[274],"prioritizes":[276],"(CCRs)":[280],"comparing":[282],"them":[283],"along":[284],"hierarchy;":[287],"Benchmark":[288],"studies":[289],"demonstrate":[290],"strong":[291],"performance":[292],"both":[296],"latent":[297],"identification":[301],"(GCRs)":[306],"apply":[308],"understanding":[311],"constructed":[315],"atlas":[319],"comprising":[323],"290,441":[324],"cells":[325],"38":[327],"samples;":[328],"Cascade-based":[329],"prioritization":[330],"identified":[331],"core":[333],"trajectories,":[338],"supports":[340],"VEXAS-like":[343],"models":[345],"house;":[348]},"counts_by_year":[],"updated_date":"2026-11-08T12:12:28.789561","created_date":"2026-09-30T00:00:00"}
