{"id":"W4318819346","doi":"10.1038/s41467-023-36265-x","title":"Transcriptional reprogramming of skeletal muscle stem cells by the niche environment","year":2023,"lang":"en","type":"article","venue":"Nature Communications","topic":"Muscle Physiology and Disorders","field":"Biochemistry, Genetics and Molecular Biology","cited_by":43,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Ottawa; McGill Genome Centre; Ottawa Hospital; McGill University; Jewish General Hospital","funders":"Lady Davis Institute for Medical Research; Fonds de Recherche du Québec - Santé; Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Jewish General Hospital; Stem Cell Network; Compute Canada; Government of Canada; McGill University","keywords":"Reprogramming; Niche; Stem cell; Cell biology; Skeletal muscle; Biology; Stem cell niche; Computational biology; Genetics; Cell; Progenitor cell; Anatomy; Biochemistry","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001660575,0.00006568234,0.00005997943,0.00001486245,0.0001633432,0.000004322458,0.0005580911,0.0001701005,0.00001210424],"category_scores_gemma":[0.00001087781,0.00005273561,0.00008163929,0.00009249912,0.000215126,0.00000203218,0.0001619837,0.0002469416,0.00001365241],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000004073661,"about_ca_system_score_gemma":0.00001721001,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000005751184,"about_ca_topic_score_gemma":0.00001999436,"domain_scores_codex":[0.9994564,0.0001028397,0.0001210242,0.0001404602,0.0000732472,0.0001060476],"domain_scores_gemma":[0.9988325,0.00004685921,0.00005142677,0.001027663,0.00002037705,0.00002115411],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00000855131,0.0000971604,0.0002461041,0.000005427527,0.0000394429,5.079795e-8,0.00008362265,0.00006655734,0.9743624,0.001266588,0.01617614,0.007648005],"study_design_scores_gemma":[0.0002658347,0.00007721486,0.01310573,0.000004015322,0.0000233922,8.876551e-7,0.0004232557,0.0001413236,0.04743096,0.0001774974,0.938233,0.0001169495],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9708507,0.02092618,0.0003229519,0.005449018,0.0001558327,0.000379762,0.0001518765,0.00004030867,0.001723378],"genre_scores_gemma":[0.9968389,0.001830999,0.0002445407,0.0002219614,0.00001886638,0.00004879592,0.0004189851,0.00000824639,0.0003687315],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9269314,"threshold_uncertainty_score":0.2150495,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01517829646730318,"score_gpt":0.2626035547145506,"score_spread":0.2474252582472474,"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."}}