{"id":"W1997520854","doi":"10.1093/gbe/evp047","title":"The Complete Plastid Genome Sequence of the Secondarily Nonphotosynthetic Alga Cryptomonas paramecium: Reduction, Compaction, and Accelerated Evolutionary Rate","year":2009,"lang":"en","type":"article","venue":"Genome Biology and Evolution","topic":"Protist diversity and phylogeny","field":"Biochemistry, Genetics and Molecular Biology","cited_by":77,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University; Canadian Institute for Advanced Research","funders":"Canadian Institutes of Health Research; Nova Scotia Health Research Foundation; Canadian Institute for Advanced Research","keywords":"Biology; Plastid; Genome; Paramecium; Genetics; Pseudogene; Endosymbiosis; Gene; Botany; Chloroplast; Cell biology","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":[0.0001644763,0.0001035891,0.0001030048,0.00002102962,0.0005236494,0.00001133379,0.0001392343,0.0001335661,0.000009054139],"category_scores_gemma":[0.0000286398,0.00007244072,0.00003663917,0.00008342763,0.0004671073,0.00000730374,0.00006462707,0.0001028217,0.000002956833],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002258888,"about_ca_system_score_gemma":0.00005826608,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003137177,"about_ca_topic_score_gemma":0.000009844248,"domain_scores_codex":[0.9993036,0.0001282686,0.0001435035,0.0002202667,0.00003955779,0.0001647945],"domain_scores_gemma":[0.9995719,0.00001694627,0.0001005598,0.0001831622,0.0000887031,0.00003869905],"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":[0.0001337528,0.00001484363,0.004226265,0.000004958176,0.00003355619,2.099665e-7,0.00003508353,0.00005005465,0.9939529,0.0009447977,0.0003969364,0.0002066531],"study_design_scores_gemma":[0.0003496904,0.0003043678,0.9588383,0.000005730459,0.0000267961,0.0001221033,0.00005911439,0.0000911683,0.005732244,0.006244652,0.02805812,0.0001677109],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9954242,0.002928307,0.0003792722,0.0004095711,0.000238332,0.0002091491,0.0001849802,0.00001119272,0.0002149907],"genre_scores_gemma":[0.999065,0.000379273,0.00006992163,0.00009961162,0.00008477955,0.000006075591,0.0001626308,0.000003507747,0.0001292114],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9882206,"threshold_uncertainty_score":0.4027541,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01703300121636314,"score_gpt":0.2374325273979152,"score_spread":0.2203995261815521,"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."}}