{"id":"W2101504321","doi":"10.1139/g11-088","title":"Under-representation of repetitive sequences in whole-genome shotgun sequence databases: an illustration using a recently acquired transposable element","year":2012,"lang":"en","type":"article","venue":"Genome","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Ministry of Education, Culture, Sports, Science and Technology","keywords":"Contig; Shotgun sequencing; Transposable element; Biology; Genome; Shotgun; Sequence (biology); Genetics; Computational biology; Repeated sequence; Gene","routes":{"ca_aff":false,"ca_fund":false,"ca_venue":true,"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":[0.003231673,0.000470244,0.0005282968,0.001742567,0.0004786845,0.001229391,0.0007706889,0.0008784691,0.0005761997],"category_scores_gemma":[0.005961532,0.0002690869,0.0003849968,0.002855989,0.001042136,0.001865022,0.001030376,0.001247269,0.0001711169],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003919216,"about_ca_system_score_gemma":0.0002712201,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003537253,"about_ca_topic_score_gemma":0.0005215463,"domain_scores_codex":[0.9979807,0.000928085,0.0001882662,0.0002015034,0.0006035157,0.00009804396],"domain_scores_gemma":[0.9951504,0.003218214,0.0007324976,0.000376718,0.0004241702,0.00009787413],"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":[0.0007151535,0.0002096964,0.01006065,0.001116249,0.0001051316,0.002942367,0.0009804902,0.005733381,0.9091213,0.01265749,0.0005296411,0.05582844],"study_design_scores_gemma":[0.00005905285,0.001241149,0.04387906,0.0002644436,0.000293609,0.02082673,0.002393394,0.1136923,0.7631208,0.03647594,0.01756359,0.000189962],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6982064,0.004129604,0.2926071,0.001679075,0.0001070657,0.0000791243,0.0003644497,0.0006023984,0.002224919],"genre_scores_gemma":[0.8236231,0.002500629,0.1716589,0.0003913366,0.00005417862,0.00007372959,0.0006866697,0.00007846596,0.0009329013],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003231673,"threshold_uncertainty_score":0.01709092,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.096225043031162,"score_gpt":0.3258241065668833,"score_spread":0.2295990635357213,"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."}}