{"id":"W2158270456","doi":"10.1101/gr.140665.112","title":"Spark: A navigational paradigm for genomic data exploration","year":2012,"lang":"en","type":"article","venue":"Genome Research","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":35,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; Simon Fraser University; Canada's Michael Smith Genome Sciences Centre; BC Cancer Agency","funders":"National Institute on Drug Abuse; Natural Sciences and Engineering Research Council of Canada; National Institute of Environmental Health Sciences; Canadian Institutes of Health Research; National Institutes of Health; National Human Genome Research Institute; Michael Smith Health Research BC","keywords":"Biology; SPARK (programming language); Computational biology; Epigenomics; Visualization; Genome browser; Genome; Data science; Genomics; DECIPHER; Bioinformatics; Genetics; Computer science; Artificial intelligence; DNA methylation; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00703699,0.001667902,0.001906593,0.002811514,0.00216766,0.006410092,0.006457583,0.001750011,0.006821315],"category_scores_gemma":[0.01265895,0.001121857,0.003076102,0.00360773,0.003412918,0.00673695,0.007693605,0.004557939,0.002415489],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001372794,"about_ca_system_score_gemma":0.003051033,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003411914,"about_ca_topic_score_gemma":0.004981808,"domain_scores_codex":[0.996302,0.001331531,0.0004517981,0.0007560734,0.0009880994,0.0001704768],"domain_scores_gemma":[0.9934177,0.003598749,0.0002985303,0.001431376,0.0006392481,0.0006143742],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001122873,0.0001960779,0.001567787,0.001949799,0.0004753347,0.001243464,0.003076828,0.03382701,0.01474742,0.5805397,0.1178161,0.2434377],"study_design_scores_gemma":[0.0003463647,0.00009595186,0.0002141985,0.0001500266,0.00007257934,0.0005532211,0.0003385451,0.1915284,0.006421797,0.6537088,0.1464414,0.0001287655],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"software","genre_scores_codex":[0.0009139872,0.000245963,0.9832102,0.001321083,0.0001219093,0.0001301906,0.0009715658,0.01135598,0.001729109],"genre_scores_gemma":[0.02468043,0.0007115696,0.9679466,0.0006078083,0.000162725,0.0009038689,0.002321558,0.001343119,0.001322137],"genre_candidate":"software","genre_consensus":null,"teacher_disagreement_score":0.00703699,"threshold_uncertainty_score":0.03721559,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.3287976332125653,"score_gpt":0.4549301667804081,"score_spread":0.1261325335678428,"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."}}