{"id":"W2123317029","doi":"10.1093/bioinformatics/bti035","title":"tPatternHunter: gapped, fast and sensitive translated homology search","year":2004,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University; University of Waterloo; Bioinformatics Solutions (Canada)","funders":"Killam Trusts; Canada Research Chairs","keywords":"Software; Computer science; Homology (biology); Frame (networking); Translation (biology); Information retrieval; Theoretical computer science; Artificial intelligence; Programming language; Biology; Genetics; Amino acid; Gene","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":[0.00008388136,0.0001307417,0.0001270725,0.0000359463,0.00008355242,0.00002029887,0.00007665029,0.0001025277,0.000002467899],"category_scores_gemma":[0.000007772757,0.0001188246,0.0000420866,0.00004303551,0.0001264825,0.000001228383,0.00008587768,0.00006244892,0.00001780139],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008122978,"about_ca_system_score_gemma":0.00004165614,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002716388,"about_ca_topic_score_gemma":0.00003467855,"domain_scores_codex":[0.999375,0.00001357577,0.0001880117,0.0001308347,0.00006718741,0.0002254035],"domain_scores_gemma":[0.9996739,0.000005945661,0.00003614792,0.0001621461,0.00005537389,0.00006650653],"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":[0.0003466026,0.0002263875,0.01145824,0.0003626533,0.0008227788,0.00004306536,0.02134753,0.002578975,0.8773476,0.001153579,0.0008070382,0.08350549],"study_design_scores_gemma":[0.01088961,0.003815992,0.07097403,0.0001314234,0.000203936,0.001378915,0.009067398,0.004057177,0.854622,0.0008200002,0.04182543,0.002214061],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9901962,0.0004331223,0.007542443,0.0002420453,0.00007983726,0.0001493302,0.00005263547,0.00000531491,0.001299036],"genre_scores_gemma":[0.9942428,0.000407128,0.004721403,0.0004234888,0.00006298284,0.000004199309,0.00004221896,0.00001162154,0.00008414373],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08129143,"threshold_uncertainty_score":0.4845524,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01029322687539442,"score_gpt":0.2294815749467501,"score_spread":0.2191883480713557,"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."}}