{"id":"W2254857578","doi":"10.1073/pnas.1522325113","title":"Strand-biased cytosine deamination at the replication fork causes cytosine to thymine mutations in <i>Escherichia coli</i>","year":2016,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":103,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Army Research Office; Institute of Genetics; National Institute of General Medical Sciences; Multidisciplinary University Research Initiative; U.S. Army; Broad Institute; Washington State University; National Institutes of Health; Wayne State University","keywords":"Cytosine; Deamination; Biology; Genetics; Thymine; DNA; DNA replication; Genome; Somatic hypermutation; Cytidine deaminase; Gene; Enzyme; Biochemistry","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001047374,0.00008219262,0.00008905553,0.00007818257,0.0001389431,0.00001197828,0.0004791812,0.0000746979,0.000006118159],"category_scores_gemma":[0.0009810235,0.00004585287,0.00004751411,0.0005422712,0.0003047262,0.00002981305,0.0001295359,0.00004424409,0.000001604309],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004300853,"about_ca_system_score_gemma":0.00003754262,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006293408,"about_ca_topic_score_gemma":0.000003984158,"domain_scores_codex":[0.9987779,0.00001103076,0.0002726449,0.0002992815,0.0005107266,0.0001284357],"domain_scores_gemma":[0.9993701,0.00006541852,0.0002540321,0.00002835414,0.0002537544,0.00002831966],"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":[0.00003510727,0.00003131053,0.001564783,0.000009370408,0.000006154267,2.122664e-9,0.00004784582,0.00005917907,0.9939206,0.003391712,0.0004262748,0.0005076824],"study_design_scores_gemma":[0.0002513475,0.0000910228,0.0482115,0.00004840884,0.000007618778,0.000002817389,0.00004789051,0.00007235551,0.9472742,0.003180647,0.0007487547,0.0000634046],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9893252,0.00005583954,0.00003591435,0.009419699,0.00001346679,0.0003435556,0.00003334978,0.000006079687,0.000766876],"genre_scores_gemma":[0.9977913,0.00002700159,0.001042622,0.0005215748,0.00005176002,0.00005551343,0.000001713937,0.000005516898,0.0005029335],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.04664671,"threshold_uncertainty_score":0.1869826,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02614273080100473,"score_gpt":0.2965244813909338,"score_spread":0.2703817505899291,"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."}}