{"id":"W2145429131","doi":"10.1093/nar/gkt574","title":"DNA motif elucidation using belief propagation","year":2013,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":70,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; University of Toronto","keywords":"Hidden Markov model; Motif (music); Biology; Executable; Computational biology; DNA microarray; DNA; Computer science; Pattern recognition (psychology); Artificial intelligence; Genetics; Gene; Physics","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":[0.0004386043,0.00009787777,0.00008065936,0.00008314777,0.0002133362,0.0001069284,0.0002419295,0.0001522927,0.0001766044],"category_scores_gemma":[0.0001156273,0.00009467311,0.00004151047,0.000164673,0.0001033297,0.00001009506,0.0002062998,0.0001569673,0.0002169965],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00005818983,"about_ca_system_score_gemma":0.00009838941,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009307294,"about_ca_topic_score_gemma":0.00001143109,"domain_scores_codex":[0.9987724,0.0001043832,0.000173055,0.000300287,0.0003015974,0.0003483238],"domain_scores_gemma":[0.9991204,0.000009612728,0.00004303138,0.0003785841,0.0003589024,0.00008944103],"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":[0.000007721375,0.00004102476,0.001359191,0.00001700353,0.00001318344,5.491767e-7,0.00004846488,0.0001187544,0.9903141,0.0001610412,0.001518203,0.00640079],"study_design_scores_gemma":[0.001347602,0.0009544048,0.05509495,0.00005732424,0.00001823889,0.00004508185,0.000850524,0.1731866,0.7428333,0.003143306,0.02173906,0.0007296489],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9939539,0.00006178692,0.002179438,0.0002067857,0.00006086461,0.0003881883,0.000005040616,0.00001180286,0.003132128],"genre_scores_gemma":[0.9953907,0.00005064081,0.003099891,0.00004674648,0.0002131668,0.00003318504,0.0001163975,0.00003070049,0.001018574],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2474808,"threshold_uncertainty_score":0.3860657,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0302840214307884,"score_gpt":0.3100416049195864,"score_spread":0.279757583488798,"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."}}