{"id":"W2098143595","doi":"10.1128/jvi.03031-13","title":"Evidence of Pervasive Biologically Functional Secondary Structures within the Genomes of Eukaryotic Single-Stranded DNA Viruses","year":2013,"lang":"en","type":"article","venue":"Journal of Virology","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":39,"is_retracted":false,"has_abstract":true,"ca_institutions":"AIDS Vancouver; University of British Columbia","funders":"National Institute of Allergy and Infectious Diseases; Canadian Institutes of Health Research; National Institute on Drug Abuse; Wellcome Trust","keywords":"Biology; Genome; Base pair; Eukaryote; DNA; Negative selection; Genetics; Natural selection; Evolutionary biology; Computational biology; Selection (genetic algorithm); Gene","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":[0.000205742,0.0001359629,0.0001671498,0.0004431247,0.0003883826,0.0002949211,0.0001953108,0.0002458179,0.0004912394],"category_scores_gemma":[0.001320224,0.0001129006,0.0002010061,0.0003992675,0.0003939429,0.0002354564,0.0002223557,0.000296802,0.00008780935],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001507927,"about_ca_system_score_gemma":0.0002551141,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005413182,"about_ca_topic_score_gemma":0.002057583,"domain_scores_codex":[0.9998323,0.00003376704,0.00001644013,0.00004643088,0.00005177245,0.00001928895],"domain_scores_gemma":[0.998798,0.0006006634,0.0002953397,0.00009380664,0.00008852707,0.0001236375],"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":[0.0007021232,0.0001804401,0.2612053,0.0003959522,0.0001613621,0.0007629074,0.0004162357,0.01751236,0.6947873,0.003021493,0.0001962184,0.02065835],"study_design_scores_gemma":[0.00008684965,0.001583932,0.6611556,0.00009718995,0.0002934494,0.002983226,0.0008409281,0.09669857,0.2255785,0.005883678,0.004709904,0.00008811795],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.998255,0.0001244607,0.001225161,0.00001153042,0.00000157074,0.000003457868,0.00008822952,0.00002326353,0.0002674538],"genre_scores_gemma":[0.9978625,0.00005381518,0.001784184,0.00001000056,0.000001895169,0.000002349891,0.0002339039,0.000004824249,0.0000465045],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0005413182,"threshold_uncertainty_score":0.00164336,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1018886516442547,"score_gpt":0.2701558365287564,"score_spread":0.1682671848845018,"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."}}