{"id":"W4412436877","doi":"10.1101/gr.280304.124","title":"Alternative splicing generates HER2 isoform diversity underlying antibody–drug conjugate resistance in breast cancer","year":2025,"lang":"en","type":"article","venue":"Genome Research","topic":"Monoclonal and Polyclonal Antibodies Research","field":"Medicine","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; Research Institute in Oncology and Hematology; CancerCare Manitoba","funders":"Conselho Nacional de Desenvolvimento Científico e Tecnológico; Fundação de Amparo à Pesquisa do Estado de São Paulo","keywords":"Gene isoform; Biology; Trastuzumab; Alternative splicing; RNA splicing; Computational biology; Breast cancer; Cancer research; Receptor tyrosine kinase; Cancer; Receptor; Genetics; Gene","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001630544,0.0002050897,0.0004234823,0.0008075954,0.0008023756,0.00008227326,0.0004410626,0.00008578143,0.000460801],"category_scores_gemma":[0.00006240715,0.000175702,0.0001040227,0.001421039,0.0003945697,0.0001474868,0.00111519,0.001031429,0.00009909896],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007214595,"about_ca_system_score_gemma":0.0005625055,"about_ca_topic_candidate":true,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0210444,"about_ca_topic_score_gemma":0.004172201,"domain_scores_codex":[0.9966933,0.0002484671,0.0003295123,0.0005903389,0.001072357,0.001066101],"domain_scores_gemma":[0.9984348,0.0003306817,0.00004447345,0.0003442966,0.0006058586,0.000239823],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.005207832,0.0005766688,0.7936575,0.002366454,0.0006778968,0.001416834,0.004671034,0.0001905536,0.1620527,0.01535376,0.004167814,0.009661],"study_design_scores_gemma":[0.002285386,0.00008961654,0.9655228,0.001266291,0.00002923136,0.00002679747,0.001287754,0.001395738,0.005079638,0.007105269,0.01556285,0.000348685],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9546079,0.006422651,0.00005504574,0.01403004,0.0001055889,0.00063219,0.0001175953,0.00002945891,0.0239995],"genre_scores_gemma":[0.9557145,0.007109204,0.000212617,0.0003968058,0.00018687,0.00002824592,0.00004253724,0.00001996269,0.03628928],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1718653,"threshold_uncertainty_score":0.9854745,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09217154462663266,"score_gpt":0.4318592274840036,"score_spread":0.3396876828573709,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}