{"id":"W3043435966","doi":"10.1093/bioinformatics/btaa469","title":"Finding the direct optimal RNA barrier energy and improving pathways with an arbitrary energy model","year":2020,"lang":"en","type":"article","venue":"Bioinformatics","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":2,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Core Research for Evolutional Science and Technology; Ministry of Education, Culture, Sports, Science and Technology; Japan Society for the Promotion of Science; Institute of Genetics; Artificial Intelligence Research Center; National Institute of Advanced Industrial Science and Technology","keywords":"Heuristics; Computer science; Source code; Hamming distance; Code (set theory); Folding (DSP implementation); Energy (signal processing); RNA; Theoretical computer science; Algorithm; Chemistry; Mathematics","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008259738,0.001257367,0.001037437,0.001380087,0.0008910563,0.001108919,0.001535055,0.001755524,0.006354433],"category_scores_gemma":[0.004238181,0.0005410312,0.001524527,0.0009333209,0.0008515952,0.002049565,0.001407852,0.001453153,0.0008507055],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001174389,"about_ca_system_score_gemma":0.002413757,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.004963164,"about_ca_topic_score_gemma":0.004995402,"domain_scores_codex":[0.9996462,0.0001057548,0.00001619376,0.0001042038,0.00006743462,0.00006019752],"domain_scores_gemma":[0.9983928,0.001085073,0.0001140033,0.0001383677,0.0001440429,0.0001257866],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00009763042,0.00008971811,0.0009430121,0.0002629127,0.00003383207,0.00009368249,0.00004511181,0.9497402,0.002601078,0.0257707,0.001167338,0.01915487],"study_design_scores_gemma":[0.00001909797,0.00002221673,0.0001064142,0.00001983424,0.00001167953,0.00003116584,0.00001815862,0.9771401,0.000902921,0.02106468,0.0006539288,0.000009805448],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.1382568,0.001556646,0.8473549,0.0007470787,0.00009028444,0.000126518,0.0008429083,0.001144277,0.009880492],"genre_scores_gemma":[0.5154434,0.0008714347,0.4769866,0.0002058492,0.00003895675,0.0003174617,0.001288578,0.0005892409,0.004258489],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.006354433,"threshold_uncertainty_score":0.02125764,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01524650807310749,"score_gpt":0.1968845897067588,"score_spread":0.1816380816336513,"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."}}