{"id":"W4402101599","doi":"10.1093/nar/gkae729","title":"Unlocking precision in aptamer engineering: a case study of the thrombin binding aptamer illustrates why modification size, quantity, and position matter","year":2024,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Advanced biosensing and bioanalysis techniques","field":"Biochemistry, Genetics and Molecular Biology","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Lethbridge","funders":"Natural Sciences and Engineering Research Council of Canada; Alliance de recherche numérique du Canada; University of Lethbridge","keywords":"Aptamer; Nucleic acid; Nucleotide; Biology; Thrombin; Biophysics; Biochemistry; Binding site; Molecular dynamics; Combinatorial chemistry; Chemistry; Molecular biology; Gene; Computational chemistry","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":[0.0005653899,0.0003280568,0.0004509814,0.0001323178,0.0005396827,0.000674886,0.0004987887,0.001208978,0.0006623886],"category_scores_gemma":[0.001398109,0.0001653891,0.0003349619,0.0003080184,0.0007698642,0.0006165386,0.000460463,0.001152715,0.000208613],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007142744,"about_ca_system_score_gemma":0.0003904896,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001780892,"about_ca_topic_score_gemma":0.002258773,"domain_scores_codex":[0.999675,0.00009674214,0.0000132467,0.00006023498,0.0001086334,0.00004607316],"domain_scores_gemma":[0.9994538,0.0003704521,0.00004726293,0.00005153207,0.0000434353,0.00003335812],"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":[0.0002008409,0.0003267156,0.003356154,0.0005477091,0.00007922551,0.003632042,0.0007721799,0.1904515,0.6729781,0.03236579,0.001315713,0.09397405],"study_design_scores_gemma":[0.00009530666,0.001212142,0.003054056,0.00004922346,0.00008990899,0.002968137,0.0004419135,0.2940694,0.6455776,0.01383457,0.03851705,0.00009075824],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8696981,0.005014125,0.107958,0.001602954,0.00008464822,0.0001282438,0.00008351481,0.0003258117,0.0151047],"genre_scores_gemma":[0.9361115,0.00201418,0.05870806,0.0001558186,0.00001646828,0.00004939607,0.00004066307,0.00004454059,0.00285944],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001780892,"threshold_uncertainty_score":0.005182445,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04358767736979303,"score_gpt":0.3670625893450442,"score_spread":0.3234749119752511,"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."}}