{"id":"W2140658698","doi":"10.1186/s13058-015-0567-2","title":"An original phylogenetic approach identified mitochondrial haplogroup T1a1 as inversely associated with breast cancer risk in BRCA2 mutation carriers","year":2015,"lang":"en","type":"article","venue":"Breast Cancer Research","topic":"Mitochondrial Function and Pathology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"ca_institutions":"St. Michael's Hospital; Cancer Care Ontario; University of Toronto; McGill University; Université Laval; Lunenfeld-Tanenbaum Research Institute; Mount Sinai Hospital; Centre hospitalier de l'Université Laval; Canada Research Chairs; Centre hospitalier universitaire de Québec","funders":"Jonsson Comprehensive Cancer Center; Medical Research Council; National Institutes of Health; Centre Léon Bérard; National Cancer Institute; Liga Portuguesa Contra o Cancro; Ministero dello Sviluppo Economico; Radboud Universitair Medisch Centrum; Deutsche Krebshilfe; Universitair Medisch Centrum Groningen; Leids Universitair Medisch Centrum; Hospices Civils de Lyon; Ministerio de Ciencia e Innovación; European Regional Development Fund; Centre National de la Recherche Scientifique; National Health and Medical Research Council; Jewish General Hospital; State Education Development Agency Republic of Latvia; Lietuvos Mokslo Taryba; University of California, Los Angeles; Università degli Studi di Firenze; KWF Kankerbestrijding; Universitair Ziekenhuis Gent; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; Ministero della Salute; Generalitat de Catalunya; Erasmus Medisch Centrum; Pomorski Uniwersytet Medyczny W Szczecinie; Vrije Universiteit Amsterdam; NIH Office of the Director; Institut Claudius Regaud; Universiteit Leiden; Cancer Australia; National Breast Cancer Foundation; Ministerstvo Zdravotnictví Ceské Republiky; Centre Hospitalier Universitaire de Nantes; European Commission; National Institute for Health and Care Research; Canadian Breast Cancer Research Alliance; Génome Québec; David F. and Margaret T. Grohne Family Foundation; Breast Cancer Research Foundation; McGill University; Univerzita Karlova v Praze; Unicancer; Clalit Health Services; Deutsches Krebsforschungszentrum; U.S. Department of Defense; Cancer Research UK; Associazione Italiana per la Ricerca sul Cancro; Beckman Research Institute, City of Hope; Cancer Center, University of Kansas; Cancerfonden; Radboud Universiteit; Ministère du Développement Économique, de l’Innovation et de l’Exportation; Fundación Mutua Madrileña; Israel Cancer Association; Institut Català de la Salut; Institut Gustave-Roussy; University of Pennsylvania; Susan G. Komen; Hungarian Scientific Research Fund; Cedars-Sinai Medical Center; Fundación Ramón Areces; Helsingin ja Uudenmaan Sairaanhoitopiiri; Landspítali Háskólasjúkrahús; University of Kansas; University of California, San Francisco; Masarykova Univerzita; Universiteit Gent; Mayo Clinic; Creighton University; Istituto Oncologico Veneto; Royal Marsden NHS Foundation Trust; European Social Fund; University of Chicago; Memorial Sloan-Kettering Cancer Center; Canadian Institutes of Health Research; General Secretariat for Research and Technology; Dr. Ralph and Marian Falk Medical Research Trust; Kansas Bioscience Authority; Istituto Toscano Tumori; Cancer Association of South Africa; Instituto de Salud Carlos III; Ohio State University; Institut Bergonié; American Cancer Society","keywords":"Breast cancer; Surgical oncology; Haplogroup; Mitochondrial DNA; Human mitochondrial DNA haplogroup; Genetics; Phylogenetic tree; Mutation; Medicine; Biology; Bioinformatics; Oncology; Internal medicine; Cancer; Gene; Haplotype; Genotype","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001258745,0.0004743044,0.0003023092,0.001430357,0.0007100621,0.0004275008,0.000305895,0.0004714977,0.002859653],"category_scores_gemma":[0.003087305,0.0001397954,0.0005606757,0.001363458,0.0002422628,0.0002126269,0.0005459129,0.000368287,0.0003312016],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001956734,"about_ca_system_score_gemma":0.0002090359,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003539722,"about_ca_topic_score_gemma":0.004475294,"domain_scores_codex":[0.9994645,0.0002185589,0.00002860718,0.0001777854,0.00005753986,0.00005303105],"domain_scores_gemma":[0.9987473,0.0005018751,0.0003108098,0.0001386763,0.0001544437,0.0001467776],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.000598387,0.00003747053,0.9721826,0.00005232591,0.0003157504,0.000169583,0.0002430981,0.0006454954,0.00856787,0.0001152169,0.0002672838,0.01680482],"study_design_scores_gemma":[0.00002720796,0.0003022006,0.987368,0.00002743045,0.0003533076,0.001049282,0.0002166067,0.007637253,0.001598417,0.0003015229,0.001106408,0.00001232709],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9932394,0.0004983571,0.004886003,0.00009908154,0.00001594996,0.00001448764,0.0007244928,0.00003596204,0.0004861352],"genre_scores_gemma":[0.9961296,0.00009814596,0.003030877,0.0000257539,0.0000120665,0.00001107584,0.0004418374,0.000009401669,0.0002411832],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003539722,"threshold_uncertainty_score":0.009566486,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04020520409984338,"score_gpt":0.3404477698499055,"score_spread":0.3002425657500621,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). 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