{"id":"W4321478681","doi":"10.1007/978-1-0716-2922-2_12","title":"Identification of Proximity Interactors of Mammalian Nucleoid Proteins by BioID","year":2023,"lang":"en","type":"article","venue":"Methods in molecular biology","topic":"Biotin and Related Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":false,"ca_institutions":"McGill Genome Centre; Montreal Neurological Institute and Hospital; McGill University","funders":"","keywords":"Biotinylation; Nucleoid; Biotin; Biology; DNA ligase; Proteomics; Computational biology; Biochemistry; Molecular biology; Cell biology; DNA; Gene; Escherichia coli","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0009341752,0.0001396093,0.0002653425,0.0001458645,0.00002449092,0.000003021316,0.0002341974,0.0003362967,0.000006877062],"category_scores_gemma":[0.0004607216,0.0001228621,0.0001113733,0.0003737017,0.000269904,0.000002092075,0.0001890222,0.0001338335,0.000003191387],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000008785787,"about_ca_system_score_gemma":0.00002523992,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003435893,"about_ca_topic_score_gemma":0.000007585318,"domain_scores_codex":[0.9983071,0.0005798206,0.0004947988,0.0003419492,0.00005963561,0.0002166593],"domain_scores_gemma":[0.999325,0.00002731192,0.0002024536,0.000334712,0.00008083165,0.0000296455],"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":[0.00003921903,0.00007060819,0.002589202,0.00006641169,0.0000707443,0.000001308659,0.00007753057,0.000008583827,0.9924004,0.0003014571,0.0001627974,0.004211735],"study_design_scores_gemma":[0.0002660003,0.0002182888,0.001165505,0.00001643917,0.00001280394,0.000001932073,0.00009419694,0.00006412326,0.9954305,0.0005977883,0.002012612,0.0001198396],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8325663,0.00125833,0.1648752,0.0002377873,0.0002823609,0.0004257544,0.00005928371,0.00001915187,0.0002758736],"genre_scores_gemma":[0.9146376,0.000469759,0.08421593,0.00005807318,0.00002467261,0.00005253777,0.0001536953,0.0000282868,0.000359395],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.08207139,"threshold_uncertainty_score":0.5010173,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01399532634159812,"score_gpt":0.3641110498841914,"score_spread":0.3501157235425932,"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."}}