{"id":"W2981906317","doi":"10.1101/818385","title":"CCSeq: Clusters of Colocalized Sequences","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"NF-κB Signaling Pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"University of Alberta; Compute Canada","keywords":"Enhancer; Computational biology; Genome; DNA binding site; Genetics; Transcription factor; Biology; Annotation; Computer science; Promoter; Gene","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.007037607,0.004583999,0.004762578,0.008364882,0.004780033,0.005230355,0.007838118,0.002655813,0.07499642],"category_scores_gemma":[0.02347746,0.002907418,0.006433831,0.007914398,0.001589289,0.003467758,0.006849407,0.004805414,0.03327812],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.002675733,"about_ca_system_score_gemma":0.006808267,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008797485,"about_ca_topic_score_gemma":0.008795452,"domain_scores_codex":[0.99334,0.001347859,0.0005132786,0.002580615,0.00174612,0.0004720898],"domain_scores_gemma":[0.9919196,0.004337416,0.0004954922,0.00101626,0.001661673,0.0005695242],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"not_applicable","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.00313683,0.0003333855,0.009291151,0.008673421,0.001935099,0.001140172,0.002355012,0.03184755,0.02338986,0.04809118,0.7843388,0.08546761],"study_design_scores_gemma":[0.001682539,0.0005028151,0.01221499,0.001289381,0.000785921,0.001176755,0.001087017,0.2381296,0.0354775,0.1326783,0.5737324,0.00124275],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"dataset","genre_gemma":"empirical","genre_scores_codex":[0.01470501,0.001190327,0.3187927,0.0009911286,0.001113882,0.001254443,0.4036448,0.2516159,0.006691825],"genre_scores_gemma":[0.0602986,0.0005073298,0.470356,0.0006748557,0.0001941483,0.004718867,0.4098601,0.05001935,0.003370803],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.07499642,"threshold_uncertainty_score":0.250888,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01314883179153442,"score_gpt":0.2251447523070836,"score_spread":0.2119959205155492,"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."}}