{"id":"W3049223427","doi":"10.1016/j.bpj.2020.08.012","title":"Reduction in Dynamics of Base pair Opening upon Ligand Binding by the Cocaine-Binding Aptamer","year":2020,"lang":"en","type":"article","venue":"Biophysical Journal","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":false,"ca_institutions":"York University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Ligand (biochemistry); Aptamer; Chemistry; Crystallography; Binding site; Base pair; Stereochemistry; DNA; Biology; Biochemistry; Receptor","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":[0.0002040139,0.0001232344,0.0001765779,0.00003787454,0.0001038749,0.0000345559,0.000163325,0.00008785858,7.881787e-7],"category_scores_gemma":[0.00008020333,0.00008584586,0.0001281008,0.0002358367,0.00008327451,0.000009180481,0.00007169664,0.0002543215,0.000001158127],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003046282,"about_ca_system_score_gemma":0.00002598853,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000005359048,"about_ca_topic_score_gemma":0.000002407946,"domain_scores_codex":[0.9991248,0.00007927313,0.0002714007,0.0002009584,0.0001487039,0.0001748993],"domain_scores_gemma":[0.9995399,0.00001295278,0.00019627,0.0001149789,0.00005784933,0.00007809217],"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":[0.00008107025,0.00003913246,0.0002268165,0.000005481237,0.00003125441,0.000004778748,0.00003420262,0.00003258286,0.9954738,0.00001375504,0.0006241119,0.003433023],"study_design_scores_gemma":[0.0002364565,0.000206293,0.00002939312,0.00003662729,0.00002337365,0.00003284529,0.0003400043,0.003168672,0.99537,0.00001457952,0.0004236712,0.0001180881],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9952809,0.00003813744,0.002534614,0.001972115,0.00004706132,0.00006477869,0.00001654234,0.000009731967,0.0000361399],"genre_scores_gemma":[0.9982705,0.0001093155,0.001082118,0.000117306,0.0003132307,0.000001277289,0.00005283984,0.00001384199,0.00003962424],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003314934,"threshold_uncertainty_score":0.3500693,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01314742371003224,"score_gpt":0.2648401706993,"score_spread":0.2516927469892677,"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."}}