{"id":"https://openalex.org/W4411232719","doi":"https://doi.org/10.1109/tcbbio.2025.3579403","title":"Identifying Functional Modules for Axillary Lymph Node Metastasis in Breast Cancer","display_name":"Identifying Functional Modules for Axillary Lymph Node Metastasis in Breast Cancer","publication_year":2025,"publication_date":"2025-06-12","ids":{"openalex":"https://openalex.org/W4411232719","doi":"https://doi.org/10.1109/tcbbio.2025.3579403","pmid":"https://pubmed.ncbi.nlm.nih.gov/40811260"},"language":"en","primary_location":{"id":"doi:10.1109/tcbbio.2025.3579403","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3579403","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Xue Li","orcid":"https://orcid.org/0000-0002-4269-224X"},"institutions":[{"id":"https://openalex.org/I9086337","display_name":"Taiyuan University of Technology","ror":"https://ror.org/03kv08d37","country_code":"CN","type":"education","lineage":["https://openalex.org/I9086337"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xue Li","raw_affiliation_strings":["College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China"],"raw_orcid":"https://orcid.org/0000-0002-4269-224X","affiliations":[{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","institution_ids":["https://openalex.org/I9086337"]},{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China","institution_ids":["https://openalex.org/I9086337"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025588089","display_name":"Lifeng Yang","orcid":"https://orcid.org/0000-0001-5175-7589"},"institutions":[{"id":"https://openalex.org/I9086337","display_name":"Taiyuan University of Technology","ror":"https://ror.org/03kv08d37","country_code":"CN","type":"education","lineage":["https://openalex.org/I9086337"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lifeng Yang","raw_affiliation_strings":["College of Computer Science and Technology, Taiyuan University of Technology, Jinzhong, China","College of Computer Science and Technology, Taiyuan University of Technology, Jinzhong, Shanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Taiyuan University of Technology, Jinzhong, China","institution_ids":["https://openalex.org/I9086337"]},{"raw_affiliation_string":"College of Computer Science and Technology, Taiyuan University of Technology, Jinzhong, Shanxi, China","institution_ids":["https://openalex.org/I9086337"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033157005","display_name":"Fa Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I9086337","display_name":"Taiyuan University of Technology","ror":"https://ror.org/03kv08d37","country_code":"CN","type":"education","lineage":["https://openalex.org/I9086337"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Fa Jiang","raw_affiliation_strings":["College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China"],"raw_orcid":"https://orcid.org/0000-0002-0993-0998","affiliations":[{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","institution_ids":["https://openalex.org/I9086337"]},{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China","institution_ids":["https://openalex.org/I9086337"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032635553","display_name":"Xiong Jiao","orcid":"https://orcid.org/0000-0002-0661-8595"},"institutions":[{"id":"https://openalex.org/I9086337","display_name":"Taiyuan University of Technology","ror":"https://ror.org/03kv08d37","country_code":"CN","type":"education","lineage":["https://openalex.org/I9086337"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiong Jiao","raw_affiliation_strings":["College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China"],"raw_orcid":"https://orcid.org/0000-0002-0661-8595","affiliations":[{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, China","institution_ids":["https://openalex.org/I9086337"]},{"raw_affiliation_string":"College of Artificial Intelligence, Taiyuan University of Technology, Jinzhong, Shanxi, China","institution_ids":["https://openalex.org/I9086337"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I9086337"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10877701,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"22","issue":"5","first_page":"2013","last_page":"2019"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.919700026512146,"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"}},"topics":[{"id":"https://openalex.org/T10183","display_name":"Breast Cancer Treatment Studies","score":0.919700026512146,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.7401422262191772},{"id":"https://openalex.org/keywords/lymph-node-metastasis","display_name":"Lymph node metastasis","score":0.6499221920967102},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.5769577622413635},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.5016739368438721},{"id":"https://openalex.org/keywords/lymph-node","display_name":"Lymph node","score":0.4684085249900818},{"id":"https://openalex.org/keywords/metastasis","display_name":"Metastasis","score":0.4243046045303345},{"id":"https://openalex.org/keywords/axillary-lymph-nodes","display_name":"Axillary lymph nodes","score":0.41998499631881714},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.36149948835372925},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.3533939719200134}],"concepts":[{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.7401422262191772},{"id":"https://openalex.org/C2992571226","wikidata":"https://www.wikidata.org/wiki/Q170758","display_name":"Lymph node metastasis","level":4,"score":0.6499221920967102},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.5769577622413635},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.5016739368438721},{"id":"https://openalex.org/C2780849966","wikidata":"https://www.wikidata.org/wiki/Q170758","display_name":"Lymph node","level":2,"score":0.4684085249900818},{"id":"https://openalex.org/C2779013556","wikidata":"https://www.wikidata.org/wiki/Q181876","display_name":"Metastasis","level":3,"score":0.4243046045303345},{"id":"https://openalex.org/C2777649267","wikidata":"https://www.wikidata.org/wiki/Q340695","display_name":"Axillary lymph nodes","level":4,"score":0.41998499631881714},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.36149948835372925},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.3533939719200134}],"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":"D001365","descriptor_name":"Axilla","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001365","descriptor_name":"Axilla","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001365","descriptor_name":"Axilla","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008198","descriptor_name":"Lymph Nodes","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008207","descriptor_name":"Lymphatic Metastasis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008207","descriptor_name":"Lymphatic Metastasis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008207","descriptor_name":"Lymphatic Metastasis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D056915","descriptor_name":"DNA Copy Number Variations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056915","descriptor_name":"DNA Copy Number Variations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056915","descriptor_name":"DNA Copy Number Variations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbbio.2025.3579403","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3579403","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40811260","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40811260","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":"IEEE transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.7099999785423279}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W2009206897","https://openalex.org/W2011417152","https://openalex.org/W2058792123","https://openalex.org/W2062533676","https://openalex.org/W2153624566","https://openalex.org/W2166616170","https://openalex.org/W2258566049","https://openalex.org/W2551318299","https://openalex.org/W2611654275","https://openalex.org/W2762183128","https://openalex.org/W2766498431","https://openalex.org/W2793422202","https://openalex.org/W2796153225","https://openalex.org/W2913305430","https://openalex.org/W2920471610","https://openalex.org/W3004496789","https://openalex.org/W3004815995","https://openalex.org/W3038607030","https://openalex.org/W3140715906","https://openalex.org/W4200043040","https://openalex.org/W4206275853","https://openalex.org/W4233698560","https://openalex.org/W4389076551"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W4405112912","https://openalex.org/W2375584271","https://openalex.org/W1997105855","https://openalex.org/W4301030387","https://openalex.org/W2414286769","https://openalex.org/W2013223288","https://openalex.org/W3015743358","https://openalex.org/W4396704211","https://openalex.org/W3091939572"],"abstract_inverted_index":{"Axillary":[0],"lymph":[1],"node":[2,80],"(ALN)":[3],"metastasis":[4,18,35,50,109,173,192],"is":[5],"a":[6,41,58],"common":[7],"form":[8],"of":[9,16,33,48,171,190],"breast":[10,25,37,198],"cancer":[11],"metastasis.":[12],"Understanding":[13],"molecular":[14],"mechanisms":[15],"ALN":[17,34,49,66,108,172,191],"may":[19,181],"provide":[20,182],"new":[21],"therapeutic":[22],"strategy":[23],"for":[24,64,107,197],"cancer.":[26,199],"To":[27],"explore":[28],"the":[29,53,103,125,140,154,163,176,186],"functional":[30,46,128,137,169,187],"evolution":[31,55,105,142,178,188],"process":[32,189],"in":[36],"cancer,":[38],"we":[39],"proposed":[40,134,155],"network":[42,61,100,106,119],"model":[43],"to":[44,92,96,135],"identify":[45,136],"modules":[47,120,138,146,170],"by":[51,112,174],"clustering":[52,175],"pathway":[54,104,141,177],"network.":[56],"First,":[57],"gene":[59,71,98,117],"co-expression":[60,99,118],"was":[62,90,110,133],"constructed":[63],"each":[65,122],"stage":[67],"separately,":[68],"and":[69,75,127,144,193],"integrated":[70],"expression,":[72],"DNA":[73],"methylation,":[74],"copy":[76],"number":[77],"variation":[78],"as":[79],"attributes":[81],"information.":[82],"Second,":[83],"integrative":[84],"non-negative":[85],"matrix":[86],"factorization":[87],"(IntNMF)":[88],"algorithm":[89,132,156],"used":[91],"integrate":[93],"multi-omics":[94],"data":[95],"detect":[97],"modules.":[101],"Next,":[102],"built":[111],"integrating":[113],"enriched":[114],"pathways":[115],"within":[116],"at":[121],"stage.":[123],"Finally,":[124],"topological":[126],"similarity-based":[129],"module":[130],"detection":[131],"from":[139],"network,":[143,179],"seven":[145],"were":[147],"obtained.":[148],"Compared":[149],"with":[150],"other":[151],"classical":[152],"algorithms,":[153],"achieved":[157],"better":[158],"similarity":[159],"cohesion":[160],"while":[161],"satisfying":[162],"structural":[164],"cohesion.":[165],"This":[166],"study":[167],"identified":[168],"which":[180],"insights":[183],"into":[184],"exploring":[185],"finding":[194],"drug":[195],"targets":[196]},"counts_by_year":[],"updated_date":"2026-07-30T17:31:21.811387","created_date":"2025-10-10T00:00:00"}
