{"id":"W4387728439","doi":"10.1093/nar/gkad894","title":"MethMotif.Org 2024: a database integrating context-specific transcription factor-binding motifs with DNA methylation patterns","year":2023,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Memorial University of Newfoundland","funders":"Canada Research Chairs; Ministry of Education - Singapore; National Research Foundation","keywords":"Biology; DNA methylation; DNA binding site; Transcription factor; Epigenetics; Context (archaeology); Methylation; DNA; Genetics; Computational biology; Database; Gene; Binding site; Promoter; Gene expression; Computer science","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001305406,0.003192847,0.002463014,0.005223445,0.0009936719,0.001832505,0.003694633,0.002411454,0.03147656],"category_scores_gemma":[0.003974591,0.001588069,0.001959805,0.003620411,0.0003239148,0.002124803,0.002446774,0.001742454,0.02868337],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008900643,"about_ca_system_score_gemma":0.001897408,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.006117911,"about_ca_topic_score_gemma":0.01157672,"domain_scores_codex":[0.9991494,0.0000958618,0.0001149406,0.000244833,0.0002764948,0.0001185231],"domain_scores_gemma":[0.9989795,0.0002811943,0.0001908022,0.0001807723,0.0001825879,0.0001851241],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.003348396,0.0002663203,0.01122954,0.009383668,0.0007492912,0.0009681802,0.0005330386,0.002802336,0.09919143,0.004893197,0.7446219,0.1220128],"study_design_scores_gemma":[0.0007805222,0.0003909012,0.01862445,0.0007771761,0.0003831899,0.001715781,0.0002186251,0.009688278,0.0322917,0.00772541,0.9270121,0.0003918028],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"software","genre_scores_codex":[0.0137075,0.005394372,0.03215274,0.0002910048,0.0002646568,0.0002020875,0.834252,0.1076705,0.006065108],"genre_scores_gemma":[0.01533545,0.001090531,0.03257125,0.0002968979,0.00005355793,0.0004261067,0.9423802,0.005743211,0.002102887],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.03147656,"threshold_uncertainty_score":0.1052996,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06639180459115952,"score_gpt":0.3316957018439923,"score_spread":0.2653038972528328,"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."}}