{"id":"W2399841009","doi":"10.1186/s12864-016-2690-6","title":"Host specialization of the blast fungus Magnaporthe oryzae is associated with dynamic gain and loss of genes linked to transposable elements","year":2016,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Fungal and yeast genetics research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":227,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; Ministry of Education, Culture, Sports, Science and Technology; Japan Society for the Promotion of Science; Biotechnology and Biological Sciences Research Council; Directorate for Biological Sciences; Gatsby Charitable Foundation","keywords":"Biology; Setaria; Eleusine; Magnaporthe; Oryza sativa; Pyricularia; Nonsynonymous substitution; Genetics; Genome; Monophyly; Oryza; Gene; Magnaporthe grisea; Phylogenetic tree; Botany; Finger millet; Clade","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00005562286,0.0001762912,0.0001149636,0.0001829555,0.00009890069,0.0001338233,0.00009036143,0.0001373286,0.0006236846],"category_scores_gemma":[0.00009809089,0.00009182657,0.0001177849,0.000152019,0.0001205634,0.0000943616,0.0001796939,0.0002124793,0.000148361],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001107499,"about_ca_system_score_gemma":0.0000733113,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003249361,"about_ca_topic_score_gemma":0.0005357941,"domain_scores_codex":[0.9999404,0.000005592829,0.000004623266,0.00002038792,0.00001314189,0.00001589096],"domain_scores_gemma":[0.9998636,0.00002017261,0.00007997664,0.0000125082,0.000006570093,0.0000171521],"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":[0.00007299895,0.00001350958,0.005418777,0.00001356667,0.000005056366,0.00006050342,0.00001884949,0.00002440343,0.9935662,0.00001501523,0.00001350387,0.0007776621],"study_design_scores_gemma":[0.00002718805,0.0002404868,0.7206793,0.000009824739,0.00005385976,0.002427563,0.0001733097,0.001054464,0.2738921,0.0001149485,0.001318234,0.000008773183],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9995071,0.00007754403,0.0001861443,0.000009367411,9.100777e-7,0.000001828748,0.0000987996,0.000009624514,0.0001087173],"genre_scores_gemma":[0.9991232,0.0000662145,0.0002498978,0.00001061176,0.000001870169,0.00000383848,0.0002664376,0.000004873069,0.0002731314],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0006236846,"threshold_uncertainty_score":0.002086401,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01105179087911627,"score_gpt":0.23689570927624,"score_spread":0.2258439183971237,"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."}}