{"id":"W2990671488","doi":"10.1101/860676","title":"The Topology of Mutated Driver Pathways","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Topological and Geometric Data Analysis","field":"Computer Science","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"","keywords":"Myeloid leukemia; Glioblastoma; Leukemia; Computational biology; Cancer; Cancer research; Biology; GRASP; Computer science; Genetics","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0008078867,0.0003785608,0.000639807,0.0003406298,0.0001931313,0.0002347644,0.003303796,0.0004384759,0.0000423029],"category_scores_gemma":[0.0004404557,0.000265995,0.00026721,0.001588727,0.0003033476,0.0001738841,0.002636477,0.000622168,0.000179809],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008626112,"about_ca_system_score_gemma":0.0003528452,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000105268,"about_ca_topic_score_gemma":0.000002405385,"domain_scores_codex":[0.9971597,0.0002328169,0.0006100289,0.0009765552,0.000459406,0.0005614565],"domain_scores_gemma":[0.9955677,0.0003773319,0.0006015274,0.002791194,0.0004977974,0.0001644608],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"observational","study_design_scores_codex":[0.00008737764,0.001137175,0.03535182,0.0006528299,0.002719566,0.0004289346,0.0001028964,0.00219851,0.287064,0.6619285,0.007977596,0.0003507724],"study_design_scores_gemma":[0.002038164,0.0006976604,0.5061004,0.0003601932,0.0006291291,1.194596e-7,0.00001972459,0.0338927,0.3517077,0.001029979,0.09968291,0.003841265],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.7741504,0.004187893,0.2122361,0.002297325,0.004797495,0.0009750837,0.0004554356,0.0007777596,0.0001225357],"genre_scores_gemma":[0.9935226,0.0004544195,0.005656266,0.0001806032,0.0001081655,0.00003721807,2.778843e-7,0.00002146264,0.00001892542],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6608985,"threshold_uncertainty_score":0.9999792,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01564830222118428,"score_gpt":0.2131187518367653,"score_spread":0.1974704496155811,"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."}}