{"id":"W3037954093","doi":"10.1101/2020.06.24.169144","title":"Integration of viral transcriptome sequencing with structure and sequence motifs predicts novel regulatory elements in SARS-CoV-2","year":2020,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"","keywords":"Biology; Polyadenylation; Gene; RNA; Genetics; Transcriptome; RNA splicing; Untranslated region; Transcription (linguistics); Coronavirus; Sequence motif; Sequence analysis; Regulatory sequence; Computational biology; Gene expression; Coronavirus disease 2019 (COVID-19)","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0001627898,0.0002875416,0.0002794256,0.0003345148,0.0002108229,0.0003995145,0.0001020889,0.0002583025,0.001547462],"category_scores_gemma":[0.0002174598,0.0001558343,0.0005124408,0.0002681656,0.0001368824,0.0001158568,0.0001686064,0.0005481847,0.0007712421],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001858254,"about_ca_system_score_gemma":0.0002487278,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004411097,"about_ca_topic_score_gemma":0.0008071178,"domain_scores_codex":[0.9998722,0.00001079744,0.000008973601,0.00004391533,0.00003611543,0.00002801477],"domain_scores_gemma":[0.9998015,0.00004898412,0.00005191612,0.0000204605,0.0000354755,0.00004161945],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001487156,0.00002047258,0.002770506,0.00002741335,0.000008447219,0.00008444792,0.00002448395,0.00009198506,0.995598,0.00004404913,0.0000681058,0.001113389],"study_design_scores_gemma":[0.00005693499,0.0009124919,0.4163441,0.00005437325,0.0001933472,0.002339118,0.0004576675,0.009357953,0.5566147,0.000647944,0.01298358,0.00003771785],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9919804,0.0005730228,0.002859361,0.00007863406,0.00003053089,0.00002375373,0.003226814,0.00007499794,0.001152514],"genre_scores_gemma":[0.9704167,0.000357164,0.006500834,0.0001662022,0.00003520238,0.00004089206,0.02001163,0.00007784654,0.00239352],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001547462,"threshold_uncertainty_score":0.005176783,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04616080696135724,"score_gpt":0.2909636719956479,"score_spread":0.2448028650342906,"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."}}