{"id":"W2762506895","doi":"10.1128/mbio.01581-17","title":"Time-Resolved Transposon Insertion Sequencing Reveals Genome-Wide Fitness Dynamics during Infection","year":2017,"lang":"en","type":"article","venue":"mBio","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":55,"is_retracted":false,"has_abstract":true,"ca_institutions":"Trinity Western University; Western University","funders":"National Institute of Allergy and Infectious Diseases; Natural Sciences and Engineering Research Council of Canada; Government of Canada; National Institutes of Health; Ministry of Agriculture of the People's Republic of China; National Natural Science Foundation of China; Howard Hughes Medical Institute","keywords":"Transposable element; Genome; Biology; Insertion sequence; DNA Transposable Elements; Computational biology; Genetics; Gene","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":[0.0001094493,0.0001294454,0.0001108292,0.00003323039,0.0002654321,0.00005355731,0.0001473874,0.0001365228,0.00001597098],"category_scores_gemma":[0.00006042547,0.0001423316,0.00007395981,0.00002525081,0.00004053763,0.000007975219,0.0000502038,0.00007869795,0.0000165492],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006167216,"about_ca_system_score_gemma":0.0000179836,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00007919513,"about_ca_topic_score_gemma":0.0002234964,"domain_scores_codex":[0.9993055,0.00001590273,0.0001510544,0.0002470164,0.00007362487,0.0002069324],"domain_scores_gemma":[0.9993941,0.000003611667,0.00006752972,0.0004416811,0.00003549375,0.00005754231],"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":[0.00002699516,0.000009855947,0.02600449,0.00004894677,0.0000230865,0.000003404661,0.00004658888,0.002199028,0.9709178,0.000004040213,0.00001716509,0.000698618],"study_design_scores_gemma":[0.0004960377,0.00007961773,0.462054,0.00003891267,0.00002400926,0.0000134057,0.00001296822,0.002224767,0.5338317,0.00003295546,0.0009227724,0.0002688993],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9861709,0.0001163906,0.01258007,0.00007326305,0.0001630375,0.0001267316,0.00001146797,0.00002899068,0.0007291823],"genre_scores_gemma":[0.9982058,0.0001060974,0.0002177908,0.00002626867,0.000182404,0.00001231662,0.0001192105,0.00002474162,0.001105394],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4370861,"threshold_uncertainty_score":0.5804115,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007980891842500537,"score_gpt":0.2606077296933796,"score_spread":0.2526268378508791,"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."}}