{"id":"W2803977137","doi":"10.1101/330845","title":"C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution","year":2018,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"Princess Margaret Cancer Centre","funders":"RIKEN; Ministry of Education, Culture, Sports, Science and Technology","keywords":"Enhancer; Enhancer RNAs; Polyadenylation; Transcriptome; Biology; Computational biology; Transcription (linguistics); Single-cell analysis; RNA; Cell; Transcription factor; Cell biology; Molecular biology; Gene expression; Gene; Genetics","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0003598974,0.0005922803,0.0004278641,0.0001223824,0.0002722439,0.0001414524,0.0002966355,0.0009487691,0.00003317024],"category_scores_gemma":[0.00006746709,0.0006642591,0.0001795907,0.0001431308,0.0002583846,0.00001838456,0.0002930046,0.0004182884,0.0000253177],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002093152,"about_ca_system_score_gemma":0.0002014728,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009078818,"about_ca_topic_score_gemma":0.0001158429,"domain_scores_codex":[0.9973628,0.0001755704,0.0003619007,0.001265943,0.000271565,0.0005622017],"domain_scores_gemma":[0.9982352,0.00001798413,0.000272336,0.0009247938,0.0002986132,0.0002511095],"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":[0.0002768014,0.0002115017,0.001852077,0.0003173602,0.00007571313,0.000007201689,0.000021042,0.00001672309,0.9968598,0.000002423859,0.0003525789,0.00000674896],"study_design_scores_gemma":[0.0007077469,0.000350612,0.008358253,0.0001169121,0.0001165349,4.620871e-8,0.000001692625,0.0002397199,0.9833198,9.960689e-7,0.006056727,0.0007310251],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9919075,0.002478261,0.00371212,0.00005495156,0.0008496601,0.0005475698,0.0003025016,0.0001192029,0.00002822075],"genre_scores_gemma":[0.9962131,0.0007179818,0.001890755,0.0001147152,0.0007990122,0.00007231573,0.000005177259,0.0001311765,0.0000558176],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01354009,"threshold_uncertainty_score":0.9995809,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0184957048534958,"score_gpt":0.2088388338903406,"score_spread":0.1903431290368448,"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."}}