{"id":"W4406838870","doi":"10.1038/s41597-025-04498-8","title":"Chromosome-level genome assembly and annotation of the gynogenetic large-scale loach (Paramisgurnus dabryanus)","year":2025,"lang":"en","type":"article","venue":"Scientific Data","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ministry of Agriculture","funders":"Chinese Academy of Sciences; National Natural Science Foundation of China","keywords":"Biology; Genome; Cypriniformes; Cobitidae; Genetics; Sequence assembly; Gene; Reference genome; Chromosome; Evolutionary biology; Genome project; Computational biology; Fish <Actinopterygii>; Fishery","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[{"model":"gemma","categories":[],"domain":null,"study_design":"bench_or_experimental","genre":"empirical","about_ca_system":false,"about_ca_topic":false,"confidence":"high","status":"direct model label, unvalidated"},{"model":"gpt","categories":[],"domain":null,"study_design":"not_applicable","genre":"dataset","about_ca_system":false,"about_ca_topic":false,"confidence":"high","status":"direct model label, unvalidated"}],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004977366,0.0001137387,0.0001257918,0.00004533581,0.0002668214,0.00007113601,0.0008251238,0.00006380715,0.000006347898],"category_scores_gemma":[0.00008992483,0.00008912385,0.00003652445,0.0002472238,0.0002821068,0.000002264796,0.001478639,0.00004732372,0.000003184722],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000006492237,"about_ca_system_score_gemma":0.0001209002,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0000113237,"about_ca_topic_score_gemma":0.0001673201,"domain_scores_codex":[0.9988063,0.00004812476,0.0002118332,0.0005855154,0.000138885,0.0002093267],"domain_scores_gemma":[0.9982864,0.00001277635,0.00008684494,0.001474304,0.0001044158,0.00003523226],"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":[0.0000105046,0.00006160413,0.00388277,0.00003949677,0.00006360118,2.321575e-7,0.0001146658,0.00004284267,0.9858956,0.00007565183,0.007795233,0.002017792],"study_design_scores_gemma":[0.0009480835,0.00008019416,0.3928005,0.0000359189,0.0001317434,0.000007910823,0.0005154867,0.001254488,0.2993793,0.0004712827,0.3040535,0.0003215777],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9886587,0.004128567,0.001046265,0.0001991403,0.0007126165,0.000228538,0.004088031,0.000002253007,0.0009359149],"genre_scores_gemma":[0.9950066,0.0001378312,0.001026931,0.00008839971,0.00004659599,0.00001023067,0.0008020427,0.000007832495,0.002873545],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6865163,"threshold_uncertainty_score":0.3634365,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02910768208878199,"score_gpt":0.2691000941846554,"score_spread":0.2399924120958734,"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."}}