{"id":"W2157251845","doi":"10.1101/gr.099796.109","title":"Genome-wide dynamics of replication timing revealed by in vitro models of mouse embryogenesis","year":2009,"lang":"en","type":"article","venue":"Genome Research","topic":"Pluripotent Stem Cells Research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":320,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hospital for Sick Children","funders":"Eunice Kennedy Shriver National Institute of Child Health and Human Development; Canadian Institutes of Health Research; National Institute of Child Health and Human Development; National Institute of General Medical Sciences; National Institutes of Health; International Rett Syndrome Foundation","keywords":"Biology; Replication timing; Epiblast; SOX2; Homeobox protein NANOG; Genetics; Embryonic stem cell; Induced pluripotent stem cell; Cell biology; Chromatin; Gene; Gastrulation","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":[0.0002333847,0.000417497,0.0002528867,0.0005229797,0.0001572814,0.0004361117,0.0003091623,0.0002430191,0.0005575425],"category_scores_gemma":[0.0002732865,0.0003123635,0.0004561119,0.0003524107,0.0001977501,0.000143157,0.0002634233,0.0005451675,0.0002843262],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004038154,"about_ca_system_score_gemma":0.0001621752,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001065235,"about_ca_topic_score_gemma":0.001853043,"domain_scores_codex":[0.9997497,0.00005248756,0.00002495449,0.00007798542,0.00006542058,0.00002950996],"domain_scores_gemma":[0.999689,0.00008009341,0.0001136674,0.00007158387,0.00002621399,0.00001941239],"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":[0.00004475122,0.00000687696,0.001131611,0.00001539443,0.00001000876,0.00001562671,0.00001891102,0.0004356613,0.9973134,0.00006328207,0.00001401855,0.0009304359],"study_design_scores_gemma":[0.000003930104,0.0001500225,0.01991898,0.000004502274,0.00003680529,0.0001603591,0.00002594534,0.003490712,0.9749425,0.0001005317,0.001155035,0.00001066451],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9691517,0.001646627,0.02638436,0.00003665772,0.00001887762,0.00004267873,0.001446217,0.0001743701,0.001098496],"genre_scores_gemma":[0.9856697,0.001566236,0.009122662,0.0000316596,0.000008374603,0.0001088949,0.002305476,0.0000681245,0.001118828],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001065235,"threshold_uncertainty_score":0.002929926,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03992302647324868,"score_gpt":0.3241959757296273,"score_spread":0.2842729492563786,"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."}}