{"id":"W1792091924","doi":"10.1016/j.biosystems.2015.10.002","title":"The identification of cis-regulatory elements: A review from a machine learning perspective","year":2015,"lang":"en","type":"review","venue":"Biosystems","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":65,"is_retracted":false,"has_abstract":false,"ca_institutions":"Child and Family Research Institute; University of British Columbia; National Research Council Canada","funders":"Natural Sciences and Engineering Research Council of Canada; Genome Canada","keywords":"Enhancer; Computational biology; Biology; Regulatory sequence; Promoter; Chromatin; Transcription factor; Genome; Noncoding DNA; DNA sequencing; Histone; DNA binding site; Genetics; Gene; Computer science; Gene expression","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":[0.0008800929,0.001000039,0.002097615,0.002562221,0.0002577465,0.001216903,0.001403289,0.001411785,0.002922887],"category_scores_gemma":[0.0016794,0.0004404437,0.0006473723,0.003091196,0.0007949667,0.001753638,0.00092476,0.001675646,0.001514735],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000674744,"about_ca_system_score_gemma":0.001448469,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001044345,"about_ca_topic_score_gemma":0.00158067,"domain_scores_codex":[0.9997759,0.00002923236,0.00003716727,0.00006200915,0.00007387791,0.00002177976],"domain_scores_gemma":[0.9991666,0.0004957647,0.0001180281,0.00002115285,0.0001512083,0.00004731887],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001197716,0.00005291471,0.000437636,0.03454252,0.0001967672,0.0002963162,0.0000712122,0.000770552,0.004308589,0.004921126,0.0227442,0.9315385],"study_design_scores_gemma":[0.00002557439,0.0001127723,0.001388952,0.00644309,0.0004558431,0.001791916,0.00008495273,0.0002783198,0.002114417,0.005083227,0.9821608,0.00006009246],"study_design_candidate":"not_applicable","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.0000891322,0.9990212,0.0003655143,0.0001690926,0.0001043993,0.000002436689,0.00002634957,0.00000631158,0.0002156437],"genre_scores_gemma":[0.0007287984,0.9981166,0.0005454067,0.0002276961,0.000146435,0.000004428534,0.00005352671,0.000002145911,0.0001749934],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.002922887,"threshold_uncertainty_score":0.009778023,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01938759512497126,"score_gpt":0.301501111215575,"score_spread":0.2821135160906038,"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."}}