{"id":"W4366083582","doi":"10.1093/molbev/msad090","title":"Dynamic Evolution of Retroviral Envelope Genes in Egg-Laying Mammalian Genomes","year":2023,"lang":"en","type":"article","venue":"Molecular Biology and Evolution","topic":"Chromosomal and Genetic Variations","field":"Agricultural and Biological Sciences","cited_by":11,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; Japan Society for the Promotion of Science; Hokkaido University","keywords":"Biology; ORFS; Genome; Gene; Endogenous retrovirus; Platypus; Genetics; Open reading frame; Virology; Peptide sequence; Zoology","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001638227,0.00008005883,0.000114406,0.0000456405,0.00009730183,0.000005571084,0.00007641403,0.0001301776,0.00002517105],"category_scores_gemma":[0.00002700461,0.00004044447,0.00003962028,0.0004658932,0.00007264345,0.00003125338,0.00006203937,0.00005626797,0.00001608315],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004698357,"about_ca_system_score_gemma":0.00001112053,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003420352,"about_ca_topic_score_gemma":0.0005472526,"domain_scores_codex":[0.9992886,0.00008849721,0.0001696283,0.0002092009,0.00005075617,0.0001933311],"domain_scores_gemma":[0.9998249,0.00002900161,0.00005185528,0.0000385278,0.00002579253,0.00002996891],"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":[0.000009103715,0.00001263215,0.2996782,0.000004230873,0.000005061603,0.00000192529,0.00002447658,0.00004786662,0.6880005,0.00364919,0.000003278183,0.008563575],"study_design_scores_gemma":[0.0001198751,0.0001429752,0.983301,0.000008133864,0.000006910176,0.000004870004,0.000174522,0.001238313,0.001227952,0.01337101,0.0003093671,0.00009509544],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.997185,0.001606339,0.0002759301,0.0005840329,0.00008408439,0.0001025512,0.00002767076,0.00003163438,0.0001027852],"genre_scores_gemma":[0.9994649,0.0001169064,0.00017766,0.00001665201,0.00002309221,0.00001130258,0.0001279705,7.174859e-7,0.00006082803],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6867725,"threshold_uncertainty_score":0.1649277,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008508255570284437,"score_gpt":0.2300288868614455,"score_spread":0.2215206312911611,"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."}}