{"id":"W4311187468","doi":"10.1101/gr.276957.122","title":"Rates and spectra of de novo structural mutations in <i>Chlamydomonas reinhardtii</i>","year":2022,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"Amgen (Canada); University of Toronto","funders":"H2020 European Research Council; Biotechnology and Biological Sciences Research Council; Directorate for Biological Sciences; European Commission","keywords":"Biology; Indel; Genetics; Mutation; Chlamydomonas reinhardtii; Mutation rate; Pseudogene; Structural variation; INDEL Mutation; Genome; Transposable element; Gene; Mutant; Single-nucleotide polymorphism; Genotype","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":[0.0005743152,0.00006247765,0.00009634775,0.00009842894,0.0001757762,0.00001010041,0.0001510908,0.0000276624,0.00004745031],"category_scores_gemma":[0.00004622661,0.00006569116,0.00002626202,0.0001834025,0.0001408241,3.434475e-7,0.0003700717,0.0001476439,7.09109e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003017187,"about_ca_system_score_gemma":0.0001183505,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001197081,"about_ca_topic_score_gemma":0.00009039978,"domain_scores_codex":[0.9990863,0.0001452201,0.0001332555,0.0002078912,0.0001539012,0.0002734618],"domain_scores_gemma":[0.9996778,0.00003331608,0.00002318452,0.0001605507,0.00006208387,0.00004306245],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.00005034878,0.00001627416,0.02334492,0.00001458278,0.0000231333,0.000007595896,0.0003956053,0.0005210339,0.97496,0.0002532032,0.00003424673,0.0003790758],"study_design_scores_gemma":[0.001957488,0.001382811,0.6776112,0.000007171374,0.00001499925,0.0001712631,0.004290994,0.0002287441,0.2744386,0.008846778,0.03062097,0.0004289992],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9950106,0.003764234,0.000007998407,0.0001766006,0.00002303634,0.000159535,0.00008778316,6.402296e-7,0.0007696286],"genre_scores_gemma":[0.9987278,0.0003844429,0.0004850079,0.00002348601,0.00005033092,0.00004710743,0.0000316718,0.00001023019,0.0002399531],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7005214,"threshold_uncertainty_score":0.2678808,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03271412701659297,"score_gpt":0.3352766925678028,"score_spread":0.3025625655512098,"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."}}