{"id":"W2106763642","doi":"10.1093/bioinformatics/17.4.385","title":"PhyloBLAST: facilitating phylogenetic analysis of BLAST results","year":2001,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":27,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"","keywords":"Phylogenetic tree; Perl; Multiple sequence alignment; The Internet; Sequence (biology); Computer science; Sequence analysis; Sequence alignment; Biology; World Wide Web; Genetics; Peptide sequence","routes":{"ca_aff":true,"ca_fund":false,"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":[0.000200112,0.0001613673,0.0002669659,0.0001495994,0.00007025067,0.00001421955,0.0001944261,0.00008889386,0.000008502951],"category_scores_gemma":[0.0001341142,0.0001489863,0.0001925021,0.0004574671,0.00009830936,0.000001079412,0.0001303682,0.00004159742,0.0000101],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007913143,"about_ca_system_score_gemma":0.00003454127,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001638532,"about_ca_topic_score_gemma":0.00006217467,"domain_scores_codex":[0.9988477,0.00002125327,0.0005670984,0.0001704673,0.0001526132,0.0002408717],"domain_scores_gemma":[0.9991145,0.00003403643,0.000236547,0.0004164428,0.0001338101,0.00006470596],"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":[0.0006102716,0.0002946278,0.07872314,0.0001956423,0.006519749,0.000004458629,0.006141714,0.04330931,0.8026165,0.0002126489,0.002707391,0.05866452],"study_design_scores_gemma":[0.006058787,0.003307397,0.4974138,0.00008612365,0.003365256,0.00004572931,0.01194141,0.1322386,0.1582996,0.0002188827,0.1845727,0.002451757],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9894102,0.0003941662,0.002802379,0.0000262597,0.00007107986,0.0001216329,0.0002482786,0.000004235193,0.00692182],"genre_scores_gemma":[0.9905006,0.000384288,0.008579115,0.00008116185,0.00005348769,0.000006539658,0.0001267907,0.000009275038,0.0002587471],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.6443169,"threshold_uncertainty_score":0.6075487,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01466242036027388,"score_gpt":0.2422725233755163,"score_spread":0.2276101030152425,"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."}}