{"id":"W1754857113","doi":"10.1038/nmeth.3549","title":"Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments","year":2015,"lang":"en","type":"article","venue":"Nature Methods","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":194,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"National Center for Advancing Translational Sciences; National Institute of General Medical Sciences; National Heart, Lung, and Blood Institute; Canadian Institutes of Health Research","keywords":"RNA-Seq; Gene; Biology; Computational biology; Gene expression; Population; Transcriptome; RNA; Genetics; Single-cell analysis; Artifact (error); Cell; Neuroscience","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000836365,0.000253198,0.0002837531,0.0001003214,0.00005206138,0.00005262805,0.0003152011,0.0006617518,0.00002023417],"category_scores_gemma":[0.0002156028,0.0002388819,0.000115178,0.0001832564,0.00009334429,0.00000952799,0.0001050721,0.0003584634,0.000009179449],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007190849,"about_ca_system_score_gemma":0.0001475846,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005523138,"about_ca_topic_score_gemma":0.00005567396,"domain_scores_codex":[0.9982132,0.0004304207,0.0003032208,0.0004984885,0.0002171017,0.0003376004],"domain_scores_gemma":[0.9991617,0.00003417618,0.00008840567,0.0004347574,0.0001273266,0.0001536333],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.0001428083,0.0001565029,0.001446693,0.00002212145,0.00002346073,0.000007275317,0.0001937944,0.00003862703,0.9905862,0.00001886419,0.001306198,0.00605752],"study_design_scores_gemma":[0.00150524,0.0001532713,0.0001834384,0.00001710063,0.00001546938,0.000005222304,0.0001555738,0.00006727229,0.9536487,0.0001782711,0.0437908,0.0002795947],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9374957,0.03982154,0.01228533,0.00006670139,0.002535105,0.0002504128,0.0000089166,0.00003673368,0.007499544],"genre_scores_gemma":[0.8882313,0.0001978623,0.1087242,0.0005035479,0.0004474756,0.00002264748,0.00005112428,0.00005666387,0.00176518],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09643885,"threshold_uncertainty_score":0.9741322,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04414706013735856,"score_gpt":0.3522280571430692,"score_spread":0.3080809970057106,"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."}}