{"id":"W3210646027","doi":"10.4236/aim.2021.1110039","title":"Minimal Secondary Structure Formation on mRNAs with a Shine-Dalgarno Sequence for Chromosomal Genes in &amp;lt;i&amp;gt;Rhodobacter sphaeroides&amp;lt;/i&amp;gt;","year":2021,"lang":"en","type":"article","venue":"Advances in Microbiology","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"Directorate for Biological Sciences","keywords":"Biology; Genetics; Rhodobacter sphaeroides; Gene; Shine-Dalgarno sequence; Start codon; Protein biosynthesis; Untranslated region; Open reading frame; Messenger RNA; Ribosomal binding site; Plasmid; Coding region; Replicon; Five prime untranslated region; Protein secondary structure; RNA; Translational efficiency; GC-content; Ribosome; Translation (biology); Peptide sequence; Biochemistry; Genome","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0002465639,0.0003258425,0.0002791918,0.000186137,0.000205132,0.0001951805,0.0001311594,0.0001265902,0.0009029356],"category_scores_gemma":[0.0003579569,0.0001512528,0.0003239176,0.0001373093,0.0002378252,0.0001236004,0.0001601969,0.0002732826,0.000248725],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002941556,"about_ca_system_score_gemma":0.0001902161,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004258958,"about_ca_topic_score_gemma":0.0009831819,"domain_scores_codex":[0.9998217,0.00003952846,0.00001575792,0.00004867344,0.00004793401,0.00002646377],"domain_scores_gemma":[0.9996625,0.000128067,0.00008325484,0.00003154559,0.00004140844,0.00005328106],"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":[0.00006316585,0.000005038895,0.0001630754,0.00001770833,0.00000277718,0.00001464916,0.00001248562,0.00004080141,0.9991693,0.0000398607,0.000009273278,0.000461836],"study_design_scores_gemma":[0.000007354243,0.0002613047,0.007745828,0.000008164063,0.00001793334,0.00008654757,0.00001558077,0.0008603469,0.9900593,0.00008714132,0.0008459739,0.000004567751],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.991384,0.0003282876,0.007185312,0.00001408966,0.00001398352,0.0000243398,0.0003344472,0.00008114715,0.0006343368],"genre_scores_gemma":[0.9878428,0.000195053,0.008817162,0.00001876863,0.000005937646,0.0000570876,0.002091961,0.00005518528,0.0009160886],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009029356,"threshold_uncertainty_score":0.003020585,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01459432919555911,"score_gpt":0.2655581874278132,"score_spread":0.2509638582322541,"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."}}