{"id":"W2324004276","doi":"10.1021/pr300778b","title":"Discovery of Cell Compartment Specific Protein–Protein Interactions using Affinity Purification Combined with Tandem Mass Spectrometry","year":2012,"lang":"en","type":"article","venue":"Journal of Proteome Research","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Montreal Clinical Research Institute; McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Tandem affinity purification; RNA polymerase II; Tandem mass spectrometry; Chromatin; Protein subunit; Chemistry; Cellular compartment; Cell fractionation; Protein–protein interaction; Compartment (ship); Mass spectrometry; Biochemistry; Cell; Cell biology; Biology; Affinity chromatography; DNA; Chromatography; Enzyme; Gene expression; Promoter; 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":[0.002396176,0.0001623148,0.0002997882,0.0003140709,0.0001509021,0.00007072736,0.0003317287,0.0001075092,0.00006106589],"category_scores_gemma":[0.0001071818,0.0001235577,0.0001314464,0.0003676208,0.0001344872,0.00006463008,0.0000834107,0.000438241,0.000008522122],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001183896,"about_ca_system_score_gemma":0.0002213785,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009794643,"about_ca_topic_score_gemma":0.00000142038,"domain_scores_codex":[0.99753,0.0005376434,0.0005166574,0.0001927918,0.0007831347,0.0004397956],"domain_scores_gemma":[0.9983841,0.00003750892,0.0005122899,0.0003813576,0.0005290655,0.0001556409],"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":[0.0009228812,0.0006049899,0.0008010476,0.00007894552,0.00007348219,0.000004449666,0.00005342685,0.00001101237,0.9970682,0.0002225186,0.00003991966,0.0001191867],"study_design_scores_gemma":[0.0006788883,0.001819273,0.001199927,0.000174013,0.00001424823,0.00003824267,0.0002384019,0.00000780442,0.9946069,0.0004057278,0.0006809557,0.0001356852],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9503928,0.0006401854,0.04718652,0.0001290605,0.00007757027,0.001119762,0.000008003816,0.000003015803,0.0004430737],"genre_scores_gemma":[0.9551957,0.00005649279,0.04377246,0.000002698471,0.0003975371,0.00005872086,0.000005658545,0.00002786184,0.0004828255],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004802931,"threshold_uncertainty_score":0.5038535,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.07157770799638817,"score_gpt":0.336028674887666,"score_spread":0.2644509668912778,"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."}}