{"id":"W2123246614","doi":"10.1101/gr.1890304","title":"Sockeye: A 3D Environment for Comparative Genomics","year":2004,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":39,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre","funders":"BC Cancer Agency; Michael Smith Health Research BC; Genome British Columbia; Genome Canada; Canada's Michael Smith Genome Sciences Centre; BC Cancer Foundation","keywords":"Annotation; Ensembl; Genomics; Visualization; Biology; Comparative genomics; Software; Java; Computational biology; Sequence (biology); Structural genomics; Suite; Computer science; Genome; Bioinformatics; Data mining; Genetics","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002584874,0.003095421,0.002785866,0.003229894,0.001454744,0.003551782,0.005956798,0.001805225,0.08821409],"category_scores_gemma":[0.003635075,0.002320437,0.003067719,0.002780089,0.0009064966,0.002842746,0.004008606,0.003745849,0.02547385],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001022111,"about_ca_system_score_gemma":0.001800881,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003754176,"about_ca_topic_score_gemma":0.006335994,"domain_scores_codex":[0.9986112,0.0003122352,0.0001244661,0.0002339142,0.0005471652,0.0001710268],"domain_scores_gemma":[0.9984818,0.0007411033,0.0001075967,0.0002470601,0.0002393717,0.000183068],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001813023,0.0002587966,0.001696655,0.004133193,0.0008422995,0.001316718,0.001139514,0.01429179,0.106398,0.02891204,0.5313162,0.3078818],"study_design_scores_gemma":[0.000778435,0.0002037551,0.003786927,0.0005454991,0.0001739579,0.001379727,0.0001594822,0.05672317,0.03504448,0.02780093,0.872957,0.0004465813],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.004406236,0.00150034,0.7756489,0.0004238597,0.001149202,0.000695176,0.05114431,0.1503055,0.01472647],"genre_scores_gemma":[0.02380858,0.001888505,0.8487383,0.000715918,0.0001581571,0.00571401,0.06739303,0.04053046,0.01105307],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.08821409,"threshold_uncertainty_score":0.2951056,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.09813126836767501,"score_gpt":0.3602772481688281,"score_spread":0.2621459798011531,"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."}}