{"id":"W4295929598","doi":"10.1101/gr.276375.121","title":"Chromosome-scale assemblies of <i>Acanthamoeba castellanii</i> genomes provide insights into <i>Legionella pneumophila</i> infection–related chromatin reorganization","year":2022,"lang":"en","type":"article","venue":"Genome Research","topic":"Legionella and Acanthamoeba research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Dalhousie University","funders":"Dalhousie University; Fondation pour la Recherche Médicale; Agence Nationale de la Recherche; Natural Sciences and Engineering Research Council of Canada; European Commission; Oxford Nanopore Technologies; Gordon and Betty Moore Foundation","keywords":"Biology; Legionella pneumophila; Genome; Legionella; Chromatin; Gene; Genetics; Microbiology; Cell biology; Bacteria","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.001452129,0.0002832,0.0003685313,0.0006177257,0.001112049,0.00008066757,0.0007297703,0.0002154182,0.0001857559],"category_scores_gemma":[0.0001414346,0.0002878277,0.000151085,0.001986397,0.0004542784,0.00002233231,0.001471777,0.0007321044,0.00008034186],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002432518,"about_ca_system_score_gemma":0.0007798289,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005675781,"about_ca_topic_score_gemma":0.0001493239,"domain_scores_codex":[0.9955646,0.000861413,0.0006258498,0.0008371942,0.001329169,0.0007818072],"domain_scores_gemma":[0.9979563,0.00008565409,0.0001964293,0.0008504576,0.0006696644,0.0002414806],"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":[0.0001104028,0.0002781357,0.005337243,0.0001827821,0.0001036555,0.00002982535,0.001337221,0.000939546,0.9883082,0.0001426118,0.00258587,0.0006445162],"study_design_scores_gemma":[0.001443842,0.00221752,0.00518349,0.00003208265,0.0000276986,0.0001997417,0.001548906,0.0003459665,0.7120455,0.001012501,0.2752538,0.0006889376],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9895178,0.004443095,0.00007545668,0.0005934297,0.0001848703,0.0009033396,0.00003291217,0.00004248844,0.004206614],"genre_scores_gemma":[0.9928116,0.002801561,0.0001189927,0.00007780424,0.0003184225,0.0001774981,0.0005836446,0.00009533019,0.003015148],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2762627,"threshold_uncertainty_score":0.9999574,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01884096402298276,"score_gpt":0.2855539230995398,"score_spread":0.266712959076557,"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."}}