{"id":"W2969895325","doi":"10.1038/s41467-019-11791-9","title":"Pioneer and nonpioneer factor cooperation drives lineage specific chromatin opening","year":2019,"lang":"en","type":"article","venue":"Nature Communications","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":144,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Université de Montréal; Montreal Clinical Research Institute","funders":"Canadian Institutes of Health Research; Government of Canada; Compute Canada","keywords":"Chromatin; Enhancer; Heterochromatin; Scaffold/matrix attachment region; Transcription factor; Biology; ChIA-PET; Pioneer factor; Chromatin remodeling; Cell biology; Histone; Genetics; Computational biology; 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":[0.00008439541,0.0001129834,0.0001031667,0.00003376865,0.0001521668,0.00006596361,0.000408876,0.0002419509,0.00003741068],"category_scores_gemma":[0.00003133429,0.0001098193,0.00003611996,0.00007304665,0.00005459909,0.000008002084,0.0003467817,0.0002843293,0.00003338847],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001297319,"about_ca_system_score_gemma":0.00002979218,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002220199,"about_ca_topic_score_gemma":0.00005600866,"domain_scores_codex":[0.9994129,0.00004933364,0.0001623338,0.0001976553,0.00006673263,0.0001110291],"domain_scores_gemma":[0.9987485,0.00002513614,0.00006804827,0.001015635,0.00009865288,0.00004397748],"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":[0.00000645656,0.00005100476,0.005036814,0.00001010693,0.00003182712,1.641806e-7,0.000228141,0.00008381891,0.9888561,0.00356523,0.001473635,0.0006567147],"study_design_scores_gemma":[0.002050837,0.0003486317,0.1067687,0.0000867417,0.00004086256,0.00004949216,0.0006399007,0.02396585,0.1023702,0.0000910997,0.7625,0.001087558],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.991717,0.004651403,0.0005847639,0.000675818,0.0001418693,0.0002657644,0.00004280504,0.00001624406,0.001904288],"genre_scores_gemma":[0.9845418,0.001454682,0.01237497,0.0002163068,0.00006290956,0.00001425658,0.000643354,0.00002061481,0.0006710783],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8864859,"threshold_uncertainty_score":0.4478301,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008407535701371798,"score_gpt":0.2514748135028843,"score_spread":0.2430672778015125,"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."}}