{"id":"W3113474824","doi":"10.1261/rna.078220.120","title":"Fluorogenic aptamers resolve the flexibility of RNA junctions using orientation-dependent FRET","year":2020,"lang":"en","type":"article","venue":"RNA","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":31,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University","funders":"U.S. Department of Energy; Argonne National Laboratory; Office of Research Infrastructure Programs, National Institutes of Health; National Center for Research Resources; National Institute of General Medical Sciences; Office of Science; National Institute of Diabetes and Digestive and Kidney Diseases; Lawrence Berkeley National Laboratory; National Heart, Lung, and Blood Institute; Natural Sciences and Engineering Research Council of Canada; National Cancer Institute; National Institutes of Health","keywords":"Biology; Aptamer; Förster resonance energy transfer; Computational biology; Flexibility (engineering); RNA; Orientation (vector space); Nucleic acid structure; Riboswitch; Biophysics; Genetics; Cell biology; Gene; Non-coding RNA; Fluorescence; Physics","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":[0.0001292736,0.00009645365,0.0001144073,0.00001659081,0.00009722223,0.000009687631,0.0001288821,0.00007286664,0.000006330846],"category_scores_gemma":[0.00008785361,0.00006996757,0.0001339754,0.000163192,0.0001293778,0.00000326658,0.00007196492,0.00007867658,0.000001646411],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001511597,"about_ca_system_score_gemma":0.00004735329,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003359194,"about_ca_topic_score_gemma":0.00002004173,"domain_scores_codex":[0.9992292,0.00005604379,0.0002043001,0.0002585918,0.0001334654,0.0001184209],"domain_scores_gemma":[0.999423,0.000009064081,0.0001160776,0.0003057966,0.0000947126,0.00005129419],"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":[0.00004648953,0.00002080546,0.000242107,0.000006543701,0.00006612298,6.702164e-7,0.00006272318,0.00009047314,0.9968974,0.0000344165,0.0003716089,0.002160626],"study_design_scores_gemma":[0.0001024714,0.00009956582,0.0001102927,0.000005073442,0.00007117217,0.000003145428,0.0002957498,0.0007704361,0.9964394,0.000111517,0.001899375,0.00009178737],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9836843,0.0002183344,0.01493242,0.0005145406,0.0000744417,0.0001339829,0.00003333148,0.00002809091,0.0003805742],"genre_scores_gemma":[0.9936039,0.00007326392,0.005684264,0.0003764834,0.0001344697,0.000002466931,0.00003873363,0.000009913773,0.00007650896],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009919615,"threshold_uncertainty_score":0.2853195,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03189153813429513,"score_gpt":0.3025518612481158,"score_spread":0.2706603231138207,"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."}}