{"id":"W2151529778","doi":"10.1101/gr.082081.108","title":"genBlastA: Enabling BLAST to identify homologous gene sequences","year":2008,"lang":"en","type":"article","venue":"Genome Research","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":448,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"Natural Sciences and Engineering Research Council of Canada; Michael Smith Health Research BC","keywords":"Biology; Gene; Homologous chromosome; Genome; Genetics; Computational biology; Candidate gene; Homologous recombination; Gene prediction","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":[0.0007617616,0.0001732886,0.0001886734,0.0001976155,0.0006085592,0.00004462229,0.0005149592,0.0001249666,0.00005648038],"category_scores_gemma":[0.0001579141,0.000167767,0.0000884247,0.0003684947,0.0002937411,8.873761e-7,0.0006893675,0.0001895451,0.0002178373],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004424382,"about_ca_system_score_gemma":0.0002229898,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001260364,"about_ca_topic_score_gemma":0.00005861744,"domain_scores_codex":[0.9978175,0.0001469539,0.0002358974,0.0006147779,0.0003984804,0.0007863457],"domain_scores_gemma":[0.9988037,0.00003464346,0.00003312259,0.0005259161,0.0003691461,0.0002334485],"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":[0.00004238043,0.00003472385,0.002006491,0.0000106765,0.00006787155,0.00005508751,0.000329452,0.0003601842,0.9955488,0.00001316938,0.0009391701,0.0005920085],"study_design_scores_gemma":[0.0005358843,0.001185128,0.07101327,0.000009066993,0.00001115842,0.0003192773,0.0005986904,0.000008926007,0.7096293,0.0003109123,0.2158395,0.0005389053],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9921417,0.005031733,0.0004128244,0.0002710424,0.0001331384,0.0003367389,0.00006327705,0.000005253735,0.001604248],"genre_scores_gemma":[0.9915883,0.003206291,0.002044842,0.0001312063,0.0006336097,0.00008217876,0.00003253685,0.00003317158,0.002247895],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2859195,"threshold_uncertainty_score":0.6841341,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.08839709977521111,"score_gpt":0.3692360436837064,"score_spread":0.2808389439084953,"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."}}