{"id":"W3204258664","doi":"10.1186/s12915-021-01158-2","title":"The transposable element-rich genome of the cereal pest Sitophilus oryzae","year":2021,"lang":"en","type":"preprint","venue":"BMC Biology","topic":"Insect symbiosis and bacterial influences","field":"Agricultural and Biological Sciences","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"European Regional Development Fund; Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement; Université de Paris; Sorbonne Université; Université de Lyon; Région Auvergne-Rhône-Alpes; Université Paris-Est Créteil Val-de-Marne; Institute for Research in Biomedicine; Ministerio de Economía y Competitividad; Institut National des Sciences Appliquées de Lyon; Centre National de la Recherche Scientifique; Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana; Institució Catalana de Recerca i Estudis Avançats; Centre de Coopération Internationale en Recherche Agronomique pour le Développement; École Polytechnique Fédérale de Lausanne; University of Melbourne; National Human Genome Research Institute; Agence Nationale de la Recherche; Ministerio de Ciencia, Innovación y Universidades","keywords":"Sitophilus; Biology; Endosymbiosis; Rice weevil; Curculionidae; Genome; Transposable element; PEST analysis; Xanthomonas oryzae; Host (biology); Insect; Botany; Gene; Genetics; Plastid; Chloroplast","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003770267,0.0002262997,0.0003559579,0.000006131742,0.0004182338,0.00009218942,0.001049791,0.0003864315,0.0005054044],"category_scores_gemma":[0.00004605748,0.00005692622,0.0002985823,0.0001647162,0.0003153718,0.00002367272,0.000507383,0.0003146036,0.000007446356],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000245863,"about_ca_system_score_gemma":0.00007076842,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001267941,"about_ca_topic_score_gemma":0.009346934,"domain_scores_codex":[0.9982297,0.0004136886,0.0004477453,0.0004187008,0.0001221449,0.0003679795],"domain_scores_gemma":[0.9990214,0.0002908637,0.0003130436,0.0002039138,0.0001302274,0.00004061451],"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":[0.00006274676,0.00009945736,0.0677681,0.00004596231,0.00007812082,8.656025e-7,0.0001528506,0.00001773429,0.9273319,0.001414694,0.00008493693,0.00294262],"study_design_scores_gemma":[0.0001675939,0.0003145975,0.9285387,0.00006167608,0.00007237966,0.000008039501,0.0005322495,0.00001189605,0.02807533,0.002196793,0.03961356,0.0004071759],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.994395,0.001106106,9.665248e-7,0.001495671,0.001386074,0.000351883,0.0002509604,0.00002016877,0.0009931264],"genre_scores_gemma":[0.9980455,0.0004751222,0.00004054547,0.00019243,0.0007873601,0.00004418294,0.0002180448,0.000001257425,0.0001955655],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8992566,"threshold_uncertainty_score":0.5533823,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02538972965389309,"score_gpt":0.2280764119733727,"score_spread":0.2026866823194796,"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."}}