{"id":"W2142538804","doi":"10.1111/j.1364-3703.2011.00776.x","title":"The use of a combination of computer‐assisted structure prediction and SHAPE probing to elucidate the secondary structures of five viroids","year":2012,"lang":"en","type":"article","venue":"Molecular Plant Pathology","topic":"Viral Infections and Immunology Research","field":"Medicine","cited_by":25,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Sherbrooke","funders":"Canadian Institutes of Health Research","keywords":"Biology; Viroid; Software; Computational biology; Nucleic acid secondary structure; RNA; Replication (statistics); Protein secondary structure; Bioinformatics; Computer science; Genetics; Virology; Gene; Programming language","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":[0.0002043228,0.00007672579,0.0001955223,0.0001035822,0.00008227838,0.000005755511,0.00006413578,0.0001012644,0.000009582446],"category_scores_gemma":[0.00007910826,0.00004426888,0.00003637436,0.0001287383,0.0002608573,0.00005079755,0.00009063392,0.0002094659,2.419656e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000107464,"about_ca_system_score_gemma":0.00002797498,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002167555,"about_ca_topic_score_gemma":0.000006106714,"domain_scores_codex":[0.9992025,0.0002145125,0.0002304639,0.0001024157,0.000102712,0.0001473285],"domain_scores_gemma":[0.9994297,0.00009976909,0.0001192599,0.0002093546,0.0001127914,0.00002914177],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0002152265,0.00005571072,0.005011313,0.00005633861,0.0001079569,0.000008683914,0.000774264,0.00004202716,0.9769023,0.001289403,0.00009270621,0.01544404],"study_design_scores_gemma":[0.0008937428,0.001291977,0.7652072,0.00005894154,0.0000905532,0.0008625815,0.0001424317,0.002338116,0.2285476,0.0001510556,0.0003578324,0.00005801797],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9970422,0.0005268414,0.001516687,0.0002246146,0.0001182262,0.0003876901,0.0001599307,0.00000683433,0.00001692034],"genre_scores_gemma":[0.9992109,0.00005242931,0.0005324468,0.00008508459,0.00001461674,0.000008316061,0.00007731756,0.000006726374,0.00001219141],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7601959,"threshold_uncertainty_score":0.1805232,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02143657029483926,"score_gpt":0.2621964263620561,"score_spread":0.2407598560672168,"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."}}