{"id":"W2105106957","doi":"10.1534/g3.112.004044","title":"Comparative Genomics of a Plant-Pathogenic Fungus,<i>Pyrenophora tritici-repentis</i>, Reveals Transduplication and the Impact of Repeat Elements on Pathogenicity and Population Divergence","year":2013,"lang":"en","type":"article","venue":"G3 Genes Genomes Genetics","topic":"Wheat and Barley Genetics and Pathology","field":"Agricultural and Biological Sciences","cited_by":179,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"National Human Genome Research Institute; Joint Genome Institute; U.S. Department of Energy; Oregon State University; Office of Science; U.S. Department of Agriculture; National Science Foundation","keywords":"Biology; Genome; Pyrenophora; Genetics; Transposable element; Gene; Comparative genomics; Population; Horizontal gene transfer; Genomics; Fungus; Effector; Botany","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":[0.0003019438,0.0002079734,0.0004321816,0.00002634511,0.0001566029,0.00003091229,0.0001972306,0.0001062815,0.00007654071],"category_scores_gemma":[0.000003607044,0.00008661434,0.0001376755,0.0001654015,0.0001958657,0.00003250813,0.00008514226,0.00007069774,0.000003215209],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001663098,"about_ca_system_score_gemma":0.00001211721,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004239817,"about_ca_topic_score_gemma":0.0001056801,"domain_scores_codex":[0.9985285,0.00018689,0.0005385954,0.0003370278,0.0001661187,0.0002429077],"domain_scores_gemma":[0.9991809,0.000153314,0.0002938395,0.0001511557,0.0001300792,0.00009068832],"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":[0.00011678,0.00006175838,0.06667025,0.00001863639,0.00004874852,3.318969e-7,0.0004049105,0.0001010358,0.7796932,0.00005247661,0.00002640315,0.1528055],"study_design_scores_gemma":[0.0008719419,0.00116611,0.9608216,0.00002230308,0.0001070966,0.00002114858,0.000277195,0.001294627,0.03244491,0.002415668,0.0002850846,0.0002723623],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9365778,0.06194616,0.00001297497,0.00008745927,0.00004623328,0.0007796832,0.0005063208,0.000007215242,0.00003616009],"genre_scores_gemma":[0.9485177,0.05075039,0.0003844043,0.00003863543,0.00006692715,0.00003408387,0.0001796767,0.000002365183,0.00002578695],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8941513,"threshold_uncertainty_score":0.353203,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02295034862223531,"score_gpt":0.2485967887790124,"score_spread":0.225646440156777,"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."}}