{"id":"W2479952736","doi":"10.1093/bioinformatics/btw489","title":"Motif comparison based on similarity of binding affinity profiles","year":2016,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":28,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Canadian Institute for Advanced Research; McGill University and Génome Québec Innovation Centre; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Motif (music); Sequence motif; Computational biology; Similarity (geometry); Web server; Computer science; Transcription factor; Biology; Artificial intelligence; Genetics; Gene; The Internet; World Wide Web","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001711305,0.0001247047,0.0001549802,0.00004837925,0.00004909715,0.00001243581,0.0001860485,0.0001245013,0.00001843029],"category_scores_gemma":[0.00008706617,0.00008772959,0.0000770742,0.00005331016,0.00006741908,0.000003956002,0.00007131996,0.00004453547,0.0000212066],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001823903,"about_ca_system_score_gemma":0.00007683621,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000001830476,"about_ca_topic_score_gemma":0.000004777336,"domain_scores_codex":[0.9992267,0.00001802756,0.0003474384,0.000102229,0.0001350591,0.0001704873],"domain_scores_gemma":[0.9992849,0.00002853688,0.0002159795,0.0003514611,0.00006325578,0.00005581472],"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":[0.0003485917,0.0009365694,0.09177033,0.0008159103,0.0001693193,0.000001741513,0.0003559258,0.003657973,0.8525162,0.002491402,0.01152883,0.03540722],"study_design_scores_gemma":[0.00174477,0.0009997064,0.01095919,0.0001618124,0.00003212653,0.000002961689,0.0003058895,0.1060751,0.8736187,0.000118532,0.005490524,0.0004907076],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9834329,0.00001250938,0.01321928,0.00009426821,0.0001026454,0.0001457175,0.0001733386,0.00001263598,0.002806735],"genre_scores_gemma":[0.9856786,0.00001906629,0.01401653,0.00008279129,0.00002668537,0.000004574866,0.00009052661,0.0000112757,0.00006999449],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1024171,"threshold_uncertainty_score":0.3577509,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01486414306976094,"score_gpt":0.2435220269961427,"score_spread":0.2286578839263818,"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."}}