{"id":"W2902441926","doi":"10.1101/484840","title":"OCHROdb: a comprehensive, quality checked database of open chromatin regions from sequencing data","year":2018,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto; University of Waterloo; SickKids Foundation; Hospital for Sick Children","funders":"Hospital for Sick Children; Sickkids Research Institute; Genome Canada","keywords":"Chromatin; ChIA-PET; Computational biology; Epigenomics; Epigenome; Biology; Genome; Genomics; ChIP-sequencing; Open science; Gene; Computer science; Genetics; Chromatin remodeling; Gene expression; DNA methylation","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":[0.007305883,0.002421731,0.002320134,0.007158928,0.001524332,0.003205562,0.003151157,0.001628201,0.01616951],"category_scores_gemma":[0.01271303,0.001725433,0.001374492,0.006921662,0.00066027,0.002002191,0.003133986,0.002133467,0.01400726],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008000226,"about_ca_system_score_gemma":0.003285919,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002523508,"about_ca_topic_score_gemma":0.00510563,"domain_scores_codex":[0.9950265,0.0007613606,0.0008270914,0.001650955,0.001447764,0.0002863377],"domain_scores_gemma":[0.9913719,0.002473043,0.001788846,0.002754171,0.001061403,0.0005505913],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"not_applicable","study_design_scores_codex":[0.007014368,0.0004211981,0.02815736,0.016579,0.001934675,0.001988691,0.001388598,0.006900403,0.2361895,0.01114325,0.5151902,0.1730928],"study_design_scores_gemma":[0.001592248,0.0005074703,0.06668393,0.001964282,0.001187199,0.002108583,0.0003101586,0.0152562,0.1271795,0.0138289,0.7688513,0.0005302286],"study_design_candidate":"not_applicable","study_design_consensus":"not_applicable","genre_codex":"dataset","genre_gemma":"dataset","genre_scores_codex":[0.0237791,0.003678017,0.05265857,0.0002137486,0.0002531595,0.0003416252,0.8676761,0.04600476,0.005394864],"genre_scores_gemma":[0.01807142,0.0005210094,0.07994883,0.0001240147,0.00005115478,0.0004984316,0.8929921,0.006814099,0.0009789109],"genre_candidate":"dataset","genre_consensus":"dataset","teacher_disagreement_score":0.01616951,"threshold_uncertainty_score":0.05409241,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06527898447476316,"score_gpt":0.3016772987598122,"score_spread":0.236398314285049,"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."}}