{"id":"W1994941758","doi":"10.1038/nprot.2013.088","title":"Chromatin tandem affinity purification sequencing","year":2013,"lang":"en","type":"article","venue":"Nature Protocols","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Ottawa; Ottawa Hospital","funders":"National Institute of Arthritis and Musculoskeletal and Skin Diseases; Canadian Institutes of Health Research; Ottawa Hospital Research Institute","keywords":"Chromatin; Chromatin immunoprecipitation; ChIP-sequencing; Tandem affinity purification; Computational biology; DNA; DNA sequencing; Biology; Immunoprecipitation; Genome; ChIP-on-chip; ChIA-PET; Tandem; Molecular biology; Genetics; Affinity chromatography; Chromatin remodeling; Gene; Gene expression; Biochemistry; Promoter; Materials science","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001411319,0.002202115,0.001842216,0.001916211,0.002956871,0.001625609,0.003252858,0.001394475,0.04133086],"category_scores_gemma":[0.001733575,0.001904139,0.001657254,0.001942566,0.001143734,0.0009376862,0.002549417,0.005352087,0.0395062],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009643601,"about_ca_system_score_gemma":0.002801934,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00270879,"about_ca_topic_score_gemma":0.01124549,"domain_scores_codex":[0.9977232,0.000240323,0.0001284895,0.0008958568,0.0005823711,0.0004298999],"domain_scores_gemma":[0.9982849,0.0003744141,0.0000689232,0.0006558581,0.0003440379,0.0002718787],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0002815032,0.0002716081,0.0009845922,0.000421648,0.0001708977,0.000147671,0.0001989873,0.0005894973,0.8999925,0.006335016,0.03668099,0.0539251],"study_design_scores_gemma":[0.0001999078,0.000297031,0.005962139,0.0001102387,0.0002147631,0.0006783393,0.00007527155,0.008106509,0.6427068,0.008061017,0.3334841,0.0001039625],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.05043341,0.002454226,0.8155586,0.001827641,0.0009804604,0.002606512,0.04488456,0.02738245,0.05387221],"genre_scores_gemma":[0.1155188,0.003400641,0.4867468,0.004855003,0.0005322659,0.006504114,0.205932,0.009001513,0.1675089],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.04133086,"threshold_uncertainty_score":0.1382654,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01048917005835851,"score_gpt":0.2714662106749797,"score_spread":0.2609770406166211,"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."}}