{"id":"W2107757889","doi":"10.1186/1471-2164-15-s6-s8","title":"Gene families as soft cliques with backbones: Amborellacontrasted with other flowering plants","year":2014,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Genome Rearrangement Algorithms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Chaining; Biology; Cluster analysis; Gene Annotation; Genome; Annotation; Gene; Computational biology; Genetics; Computer science; Artificial intelligence","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0001432936,0.0002606427,0.0002142339,0.00005029139,0.00007430661,0.00004632854,0.0002116277,0.0001232205,0.00001922385],"category_scores_gemma":[0.00001313286,0.0002072277,0.00004826875,0.00005245743,0.00008710683,0.000004187068,0.00007054882,0.00007283752,0.00005371605],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000245185,"about_ca_system_score_gemma":0.0001082294,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007239924,"about_ca_topic_score_gemma":0.0006729588,"domain_scores_codex":[0.9988464,0.00004455138,0.0001819917,0.0004325478,0.0001385853,0.0003559202],"domain_scores_gemma":[0.9992807,0.00001421889,0.00009395865,0.000443582,0.00006384937,0.0001037148],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0007209213,0.00007845285,0.01887717,0.00005603897,0.0002399471,0.00000499713,0.0003253733,0.002731378,0.9726952,0.00003032799,0.0001321165,0.004108124],"study_design_scores_gemma":[0.003899199,0.002135787,0.0103997,0.00006204975,0.00010867,0.0001343802,0.0009685362,0.001318527,0.8854939,0.00007891936,0.09418605,0.001214283],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9665164,0.0003414055,0.03056834,0.00001814472,0.00006447274,0.0002832146,0.00002222703,0.00003531027,0.002150464],"genre_scores_gemma":[0.9692358,0.0001900072,0.02898397,0.0002689746,0.0003550096,0.00003189899,0.0001077098,0.00009815632,0.000728456],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09405393,"threshold_uncertainty_score":0.8450501,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008034647044978072,"score_gpt":0.2096216282096798,"score_spread":0.2015869811647017,"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."}}