{"id":"W1593404939","doi":"10.1186/1471-2105-5-37","title":"Structural characterization of genomes by large scale sequence-structure threading","year":2004,"lang":"en","type":"article","venue":"BMC Bioinformatics","topic":"Fractal and DNA sequence analysis","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; BC Cancer Agency","funders":"Genome Prairie; Genome British Columbia; Michael Smith Health Research BC","keywords":"Threading (protein sequence); Proteome; Computational biology; Biology; Sequence motif; Genome; DNA microarray; Gene; Genetics; Protein structure; Gene expression; Biochemistry","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":[0.0000535595,0.0001336425,0.0001536243,0.00004382751,0.00007480068,0.00002465208,0.0001597037,0.0001335432,0.0000299166],"category_scores_gemma":[0.00001658774,0.0001106722,0.00008529358,0.0001361474,0.00006951371,0.00002801795,0.00005764533,0.00005612967,0.000006974052],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001971322,"about_ca_system_score_gemma":0.00006703947,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001074227,"about_ca_topic_score_gemma":0.00003725553,"domain_scores_codex":[0.9992332,0.00000859813,0.0003057752,0.0001159442,0.000137205,0.0001993126],"domain_scores_gemma":[0.9994511,0.000002434136,0.0001959004,0.0002246716,0.00006972229,0.00005616963],"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":[0.00002055021,0.00001183537,0.006280123,0.00009039308,0.00003029199,2.336112e-7,0.0003643353,0.0004480485,0.9916455,0.0001006586,0.00003108913,0.0009770019],"study_design_scores_gemma":[0.0008882826,0.0002140346,0.003537681,0.00004268417,0.00006096101,0.00002630665,0.0006220985,0.01416483,0.9774548,0.0005343748,0.002035633,0.0004182645],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9794753,0.0001229563,0.01961084,0.00002830576,0.00005953778,0.00009407155,0.0004028137,0.00001121329,0.0001949677],"genre_scores_gemma":[0.9853848,0.0001079685,0.01187257,0.0001761758,0.00006316976,0.0000023836,0.00226837,0.00001022806,0.0001143183],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01419059,"threshold_uncertainty_score":0.4513081,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009893237619123097,"score_gpt":0.2328918501546392,"score_spread":0.2229986125355161,"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."}}