{"id":"W2102637097","doi":"10.1099/mic.0.28743-0","title":"Promoter prediction in the rhizobia","year":2006,"lang":"en","type":"article","venue":"Microbiology","topic":"Legume Nitrogen Fixing Symbiosis","field":"Agricultural and Biological Sciences","cited_by":75,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"Ontario Genomics; Ontario Genomics Institute; Genome Canada","keywords":"Promoter; Biology; Genetics; Sinorhizobium meliloti; Gene; Plasmid; Consensus sequence; Computational biology; Gene expression; Peptide sequence","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":[0.0001814348,0.00006745789,0.00007122736,0.000007312589,0.00006129492,0.00001647742,0.0001910137,0.00009156103,0.0003265736],"category_scores_gemma":[0.00000724955,0.00001895642,0.00003837773,0.0001646647,0.00004587029,0.00002943777,0.00002362068,0.00008954485,0.0001573039],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001599381,"about_ca_system_score_gemma":0.000002002485,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005369373,"about_ca_topic_score_gemma":0.001435382,"domain_scores_codex":[0.9993797,0.0001189379,0.0001267616,0.0001601338,0.00002320118,0.0001912793],"domain_scores_gemma":[0.9998485,0.00006371269,0.00002886888,0.00003897256,0.00001245123,0.00000742974],"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":[0.000003803672,0.00004579832,0.02381117,5.737513e-7,0.000001374556,0.000002173386,0.00002702653,6.90126e-8,0.9675866,0.00009907735,0.007508182,0.0009141729],"study_design_scores_gemma":[0.0002383816,0.000252485,0.778663,0.000008900812,0.000009050087,0.0001726502,0.00009187999,0.000003595314,0.1217592,0.001397664,0.09722544,0.0001777445],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9957966,0.00006479763,2.64403e-7,0.00231107,0.00008256047,0.0001418396,0.0000428519,0.00003383625,0.001526149],"genre_scores_gemma":[0.9987689,5.126284e-7,0.0000272602,0.0004783456,0.000197352,0.00001595772,0.0001730927,3.606331e-7,0.0003382273],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8458273,"threshold_uncertainty_score":0.3575751,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007548677863388586,"score_gpt":0.1778723614960988,"score_spread":0.1703236836327102,"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."}}