{"id":"https://openalex.org/W4416059041","doi":"https://doi.org/10.1093/bib/bbaf578","title":"TMBclaw: tumor clone-aware graph learning improves immunotherapy response prediction across heterogeneous cohorts","display_name":"TMBclaw: tumor clone-aware graph learning improves immunotherapy response prediction across heterogeneous cohorts","publication_year":2025,"publication_date":"2025-11-01","ids":{"openalex":"https://openalex.org/W4416059041","doi":"https://doi.org/10.1093/bib/bbaf578","pmid":"https://pubmed.ncbi.nlm.nih.gov/41206114"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf578","pdf_url":"https://academic.oup.com/bib/article-pdf/26/6/bbaf578/65235107/bbaf578.pdf","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://academic.oup.com/bib/article-pdf/26/6/bbaf578/65235107/bbaf578.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113308684","display_name":"Yixuan Wang","orcid":"https://orcid.org/0000-0002-2041-1769"},"institutions":[{"id":"https://openalex.org/I9842412","display_name":"Nanjing University of Aeronautics and Astronautics","ror":"https://ror.org/01scyh794","country_code":"CN","type":"education","lineage":["https://openalex.org/I9842412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yixuan Wang","raw_affiliation_strings":["Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics , 29 Jiangjun Avenue, Jiangning, Nanjing 211106 ,","Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, 29 Jiangjun Avenue, Jiangning, Nanjing 211106, Jiangsu, China"],"raw_orcid":"https://orcid.org/0000-0002-2041-1769","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics , 29 Jiangjun Avenue, Jiangning, Nanjing 211106 ,","institution_ids":["https://openalex.org/I9842412"]},{"raw_affiliation_string":"Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, 29 Jiangjun Avenue, Jiangning, Nanjing 211106, Jiangsu, China","institution_ids":["https://openalex.org/I9842412"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Tianyi Zhu","orcid":null},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tianyi Zhu","raw_affiliation_strings":["School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013359542","display_name":"Xiaofeng Song","orcid":"https://orcid.org/0000-0001-7445-4302"},"institutions":[{"id":"https://openalex.org/I9842412","display_name":"Nanjing University of Aeronautics and Astronautics","ror":"https://ror.org/01scyh794","country_code":"CN","type":"education","lineage":["https://openalex.org/I9842412"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaofeng Song","raw_affiliation_strings":["Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics , 29 Jiangjun Avenue, Jiangning, Nanjing 211106 ,","Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, 29 Jiangjun Avenue, Jiangning, Nanjing 211106, Jiangsu, China"],"raw_orcid":"https://orcid.org/0000-0001-7445-4302","affiliations":[{"raw_affiliation_string":"Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics , 29 Jiangjun Avenue, Jiangning, Nanjing 211106 ,","institution_ids":["https://openalex.org/I9842412"]},{"raw_affiliation_string":"Department of Biomedical Engineering, College of Automation Engineering, Nanjing University of Aeronautics and Astronautics, 29 Jiangjun Avenue, Jiangning, Nanjing 211106, Jiangsu, China","institution_ids":["https://openalex.org/I9842412"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101837714","display_name":"Peng Chen","orcid":"https://orcid.org/0000-0001-9021-021X"},"institutions":[{"id":"https://openalex.org/I168879160","display_name":"Zhejiang University of Science and Technology","ror":"https://ror.org/05mx0wr29","country_code":"CN","type":"education","lineage":["https://openalex.org/I168879160"]},{"id":"https://openalex.org/I55712492","display_name":"Zhejiang University of Technology","ror":"https://ror.org/02djqfd08","country_code":"CN","type":"education","lineage":["https://openalex.org/I55712492"]},{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peng Chen","raw_affiliation_strings":["College of Computer Science and Technology, Zhejiang University , 866 Yuhangtang Rd, Hangzhou 310058, Zhejiang ,","College of Computer Science and Technology, Zhejiang University, 866 Yuhangtang Rd, Hangzhou 310058, Zhejiang, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Zhejiang University , 866 Yuhangtang Rd, Hangzhou 310058, Zhejiang ,","institution_ids":["https://openalex.org/I55712492","https://openalex.org/I168879160","https://openalex.org/I76130692"]},{"raw_affiliation_string":"College of Computer Science and Technology, Zhejiang University, 866 Yuhangtang Rd, Hangzhou 310058, Zhejiang, China","institution_ids":["https://openalex.org/I55712492","https://openalex.org/I168879160","https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100452974","display_name":"Xiaoyan Zhu","orcid":"https://orcid.org/0000-0002-7173-7793"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoyan Zhu","raw_affiliation_strings":["School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081685345","display_name":"Zhili Chang","orcid":null},"institutions":[{"id":"https://openalex.org/I86659429","display_name":"Genesee Community College","ror":"https://ror.org/053j19t39","country_code":"US","type":"education","lineage":["https://openalex.org/I86659429"]},{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Zhili Chang","raw_affiliation_strings":["Geneseeq Research Institute, Nanjing Geneseeq Technology Inc. , 128 Huakang Road, Pukou, Nanjing 210032 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","Geneseeq Research Institute, Nanjing Geneseeq Technology Inc., 128 Huakang Road, Pukou, Nanjing 210032, Jiangsu, China","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Geneseeq Research Institute, Nanjing Geneseeq Technology Inc. , 128 Huakang Road, Pukou, Nanjing 210032 ,","institution_ids":["https://openalex.org/I86659429"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Geneseeq Research Institute, Nanjing Geneseeq Technology Inc., 128 Huakang Road, Pukou, Nanjing 210032, Jiangsu, China","institution_ids":["https://openalex.org/I86659429"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100410939","display_name":"Xiaonan Wang","orcid":"https://orcid.org/0000-0001-9775-2417"},"institutions":[{"id":"https://openalex.org/I86659429","display_name":"Genesee Community College","ror":"https://ror.org/053j19t39","country_code":"US","type":"education","lineage":["https://openalex.org/I86659429"]},{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Xiaonan Wang","raw_affiliation_strings":["Geneseeq Research Institute, Nanjing Geneseeq Technology Inc. , 128 Huakang Road, Pukou, Nanjing 210032 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","Geneseeq Research Institute, Nanjing Geneseeq Technology Inc., 128 Huakang Road, Pukou, Nanjing 210032, Jiangsu, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Geneseeq Research Institute, Nanjing Geneseeq Technology Inc. , 128 Huakang Road, Pukou, Nanjing 210032 ,","institution_ids":["https://openalex.org/I86659429"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"Geneseeq Research Institute, Nanjing Geneseeq Technology Inc., 128 Huakang Road, Pukou, Nanjing 210032, Jiangsu, China","institution_ids":["https://openalex.org/I86659429"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047344339","display_name":"Xin Lai","orcid":"https://orcid.org/0000-0003-3850-5680"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xin Lai","raw_affiliation_strings":["School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049 ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027360778","display_name":"Jiayin Wang","orcid":"https://orcid.org/0000-0002-3862-6557"},"institutions":[{"id":"https://openalex.org/I87445476","display_name":"Xi'an Jiaotong University","ror":"https://ror.org/017zhmm22","country_code":"CN","type":"education","lineage":["https://openalex.org/I87445476"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiayin Wang","raw_affiliation_strings":["School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049, Shaanxi ,","School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China"],"raw_orcid":"https://orcid.org/0000-0002-3862-6557","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi\u2019an Jiaotong University , 28 Xianning West Road, Beilin, Xi\u2019an 710049, Shaanxi ,","institution_ids":["https://openalex.org/I87445476"]},{"raw_affiliation_string":"School of Computer Science and Technology, Faculty of Electronics and Information Engineering, Xi'an Jiaotong University, 28 Xianning West Road, Beilin, Xi'an 710049, Shaanxi, China","institution_ids":["https://openalex.org/I87445476"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.467,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.85908146,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"26","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.8503999710083008,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10158","display_name":"Cancer Immunotherapy and Biomarkers","score":0.8503999710083008,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.08030000329017639,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.01850000023841858,"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/immunotherapy","display_name":"Immunotherapy","score":0.6464999914169312},{"id":"https://openalex.org/keywords/lung-cancer","display_name":"Lung cancer","score":0.4341999888420105},{"id":"https://openalex.org/keywords/precision-medicine","display_name":"Precision medicine","score":0.4117000102996826},{"id":"https://openalex.org/keywords/discriminative-model","display_name":"Discriminative model","score":0.4075999855995178},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.3779999911785126},{"id":"https://openalex.org/keywords/generalizability-theory","display_name":"Generalizability theory","score":0.3467000126838684},{"id":"https://openalex.org/keywords/cancer-immunotherapy","display_name":"Cancer immunotherapy","score":0.34360000491142273}],"concepts":[{"id":"https://openalex.org/C2777701055","wikidata":"https://www.wikidata.org/wiki/Q1427096","display_name":"Immunotherapy","level":3,"score":0.6464999914169312},{"id":"https://openalex.org/C2776256026","wikidata":"https://www.wikidata.org/wiki/Q47912","display_name":"Lung cancer","level":2,"score":0.4341999888420105},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.428600013256073},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41350001096725464},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.4117000102996826},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.4075999855995178},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.38190001249313354},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.3779999911785126},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35569998621940613},{"id":"https://openalex.org/C27158222","wikidata":"https://www.wikidata.org/wiki/Q5532422","display_name":"Generalizability theory","level":2,"score":0.3467000126838684},{"id":"https://openalex.org/C2780674031","wikidata":"https://www.wikidata.org/wiki/Q2012719","display_name":"Cancer immunotherapy","level":4,"score":0.34360000491142273},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.33390000462532043},{"id":"https://openalex.org/C2776107976","wikidata":"https://www.wikidata.org/wiki/Q1786433","display_name":"Tumor microenvironment","level":3,"score":0.2992999851703644},{"id":"https://openalex.org/C2777658100","wikidata":"https://www.wikidata.org/wiki/Q180614","display_name":"Melanoma","level":2,"score":0.28780001401901245},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.28299999237060547},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2816999852657318},{"id":"https://openalex.org/C72563966","wikidata":"https://www.wikidata.org/wiki/Q1303415","display_name":"Cohort","level":2,"score":0.26260000467300415},{"id":"https://openalex.org/C2780851360","wikidata":"https://www.wikidata.org/wiki/Q21686041","display_name":"Immune checkpoint","level":4,"score":0.2624000012874603},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2619999945163727},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.2605000138282776},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.25589999556541443},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.25}],"mesh":[{"descriptor_ui":"D000082082","descriptor_name":"Immune Checkpoint Inhibitors","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D000082082","descriptor_name":"Immune Checkpoint Inhibitors","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D000082082","descriptor_name":"Immune Checkpoint Inhibitors","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002289","descriptor_name":"Carcinoma, Non-Small-Cell Lung","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D007167","descriptor_name":"Immunotherapy","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D008175","descriptor_name":"Lung Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":false},{"descriptor_ui":"D008545","descriptor_name":"Melanoma","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000628","qualifier_name":"therapy","is_major_topic":true},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D014408","descriptor_name":"Biomarkers, Tumor","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf578","pdf_url":"https://academic.oup.com/bib/article-pdf/26/6/bbaf578/65235107/bbaf578.pdf","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:41206114","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41206114","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":null},{"id":"pmh:oai:europepmc.org:11405187","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12596255","pdf_url":null,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf578","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf578","pdf_url":"https://academic.oup.com/bib/article-pdf/26/6/bbaf578/65235107/bbaf578.pdf","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/G3180425335","display_name":null,"funder_award_id":"72293581","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G516663181","display_name":null,"funder_award_id":"72274152","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5918323401","display_name":null,"funder_award_id":"62302215","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6580856047","display_name":null,"funder_award_id":"72293580","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"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4416059041.pdf","grobid_xml":"https://content.openalex.org/works/W4416059041.grobid-xml"},"referenced_works_count":53,"referenced_works":["https://openalex.org/W1999365184","https://openalex.org/W2015182193","https://openalex.org/W2019607817","https://openalex.org/W2049553585","https://openalex.org/W2107429737","https://openalex.org/W2121723241","https://openalex.org/W2286206973","https://openalex.org/W2291298003","https://openalex.org/W2299181842","https://openalex.org/W2593030814","https://openalex.org/W2606495925","https://openalex.org/W2761575992","https://openalex.org/W2763584377","https://openalex.org/W2783897381","https://openalex.org/W2785934082","https://openalex.org/W2788142646","https://openalex.org/W2797855256","https://openalex.org/W2885948040","https://openalex.org/W2890100090","https://openalex.org/W2900082702","https://openalex.org/W2909679049","https://openalex.org/W2943298863","https://openalex.org/W2945998739","https://openalex.org/W2991341799","https://openalex.org/W3047253098","https://openalex.org/W3088005314","https://openalex.org/W3097803258","https://openalex.org/W3111936105","https://openalex.org/W3118913605","https://openalex.org/W3136653115","https://openalex.org/W3186397855","https://openalex.org/W3197265554","https://openalex.org/W3203258105","https://openalex.org/W3206266376","https://openalex.org/W3211647829","https://openalex.org/W4205923470","https://openalex.org/W4280529341","https://openalex.org/W4283644334","https://openalex.org/W4293476620","https://openalex.org/W4362673605","https://openalex.org/W4365137743","https://openalex.org/W4366367067","https://openalex.org/W4376110127","https://openalex.org/W4383897132","https://openalex.org/W4385255401","https://openalex.org/W4386741066","https://openalex.org/W4386776749","https://openalex.org/W4390692365","https://openalex.org/W4393203256","https://openalex.org/W4401908548","https://openalex.org/W4405544132","https://openalex.org/W4406117717","https://openalex.org/W4411806241"],"related_works":[],"abstract_inverted_index":{"Immune":[0],"checkpoint":[1],"inhibitors":[2],"(ICIs)":[3],"have":[4,54],"emerged":[5],"as":[6],"a":[7,70,113],"cornerstone":[8],"of":[9,15,85,126,145,169,195,201,210],"modern":[10],"oncology,":[11],"necessitating":[12],"the":[13,64,82,218],"development":[14],"robust":[16],"biomarkers":[17],"for":[18,118],"optimizing":[19],"patient":[20],"stratification":[21],"and":[22,134,171,189,198,213],"treatment":[23],"selection.":[24],"While":[25],"tumor":[26,61,211],"mutation":[27,39,57],"burden":[28],"(TMB)":[29],"has":[30],"demonstrated":[31],"prognostic":[32,187],"value,":[33],"conventional":[34,184],"quantification":[35,194],"methods":[36,185],"based":[37],"on":[38,56],"counts":[40],"fail":[41],"to":[42,48,73,207],"reflect":[43],"immunogenic":[44],"neoantigen":[45],"presentation":[46],"due":[47],"intratumoral":[49],"clonal":[50,135,196],"heterogeneity.":[51],"Recent":[52],"efforts":[53],"focused":[55],"subsets":[58],"derived":[59],"from":[60,174],"clonality,":[62],"yet":[63],"complex":[65],"interactions":[66],"among":[67],"clones":[68],"remain":[69],"significant":[71],"obstacle":[72],"accurate":[74],"prognosis.":[75],"This":[76],"challenge":[77],"is":[78],"further":[79],"exacerbated":[80],"by":[81],"inherent":[83],"constraints":[84],"limited":[86],"cohort":[87],"sizes":[88],"in":[89,186],"clinical":[90,139],"studies,":[91],"which":[92],"severely":[93],"compromise":[94],"model":[95],"generalizability":[96],"across":[97],"heterogeneous":[98],"cohorts.":[99],"Therefore,":[100],"we":[101,141],"propose":[102],"TMBclaw":[103,122,181,204],"(Tumor":[104],"Mutation":[105],"Burden-based":[106],"Clonal":[107],"attention":[108],"with":[109,148,158,161],"Laplacian":[110],"Adaptive":[111],"Weighting),":[112],"graph-regularized":[114],"multi-task":[115],"learning":[116],"framework":[117],"immunotherapy":[119,219],"response":[120],"prediction.":[121],"establishes":[123],"unified":[124],"integration":[125],"group-structured":[127],"cohorts":[128,144,165],"while":[129],"enabling":[130],"cross-cohort":[131],"knowledge":[132],"transfer":[133],"relationship":[136],"exploration.":[137],"For":[138],"validation,":[140],"utilized":[142],"four":[143],"238":[146],"patients":[147,173],"non-small-cell":[149],"lung":[150],"cancer":[151],"(NSCLC),":[152],"melanoma,":[153],"or":[154],"nasopharyngeal":[155],"carcinoma":[156],"treated":[157],"ICIs,":[159],"along":[160],"external":[162],"multicenter":[163],"validation":[164],"(N":[166],"=":[167],"1433)":[168],"melanoma":[170],"NSCLC":[172],"public":[175],"datasets.":[176],"Comparative":[177],"analyses":[178],"demonstrate":[179],"that":[180],"significantly":[182],"outperforms":[183],"accuracy":[188],"risk":[190],"stratification.":[191],"Through":[192],"systematic":[193],"dynamics":[197],"discriminative":[199],"identification":[200],"driver":[202],"clones,":[203],"shows":[205],"potential":[206],"improve":[208],"understanding":[209],"heterogeneity":[212],"provides":[214],"interpretable":[215],"insights":[216],"into":[217],"process.":[220]},"counts_by_year":[{"year":2026,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-11-09T00:00:00"}
