{"id":"W7115178894","doi":"10.64898/2025.12.13.692850","title":"Genomic Flexibility Through Extrachromosomal Amplifications: A <i>Leishmania</i> Survival Strategy","year":2025,"lang":"","type":"article","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Research on Leishmaniasis Studies","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Hôtel-Dieu de Montréal; McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Canada Foundation for Innovation","keywords":"Extrachromosomal DNA; Amplicon; Homologous recombination; Gene duplication; Population; Recombination; Flexibility (engineering)","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002544008,0.000205902,0.0001837015,0.0002008475,0.0001616322,0.0007012489,0.0002959568,0.0003419249,0.0009985418],"category_scores_gemma":[0.0003949619,0.0002229021,0.0002013832,0.000139557,0.0004488426,0.0005191608,0.0004552708,0.0005526975,0.0003207777],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003356559,"about_ca_system_score_gemma":0.0001689798,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003961684,"about_ca_topic_score_gemma":0.0005351474,"domain_scores_codex":[0.9998372,0.00002551288,0.00000975173,0.000063019,0.00003145076,0.00003305802],"domain_scores_gemma":[0.9996946,0.00007055663,0.0001087439,0.0000504285,0.00003805247,0.00003780059],"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":[0.00003382988,0.00001050228,0.001534855,0.00003356706,0.000005893482,0.00004020828,0.00003279852,0.0004180019,0.9938568,0.0004795063,0.00004571101,0.003508148],"study_design_scores_gemma":[0.00001120107,0.000269012,0.02296344,0.0000192995,0.00003043043,0.0007892578,0.0001787246,0.01380878,0.9563687,0.001041971,0.00448846,0.00003073179],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9713789,0.000721887,0.02462077,0.0001877358,0.0000146663,0.00002350185,0.0002162819,0.0004002635,0.002435916],"genre_scores_gemma":[0.9931719,0.0001704153,0.005655504,0.00006255027,0.00000498557,0.00001080772,0.0001591813,0.00004121711,0.0007234741],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009985418,"threshold_uncertainty_score":0.003340483,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04167737753319425,"score_gpt":0.3002970651593664,"score_spread":0.2586196876261722,"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."}}