{"id":"W3138519498","doi":"10.1038/s41467-021-21883-0","title":"The transcriptional landscape of Shh medulloblastoma","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"Hedgehog Signaling Pathway Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":94,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; Toronto Western Hospital; University Health Network; McMaster University; Canada's Michael Smith Genome Sciences Centre; SickKids Foundation; BC Cancer Agency; McGill Genome Centre; Hamilton General Hospital; Simon Fraser University; McGill University Health Centre; McGill University; Princess Margaret Cancer Centre; University of Calgary; Ontario Institute for Cancer Research; Alberta Children's Hospital; University of Toronto; Hospital for Sick Children","funders":"National Center for Research Resources; National Institute of General Medical Sciences; National Cancer Institute; National Human Genome Research Institute; National Institute of Mental Health; Canadian Cancer Society Research Institute; National Institutes of Health; National Heart, Lung, and Blood Institute; Broad Institute; Genome British Columbia; Hospital for Sick Children; Cancer Research UK; National Institute on Drug Abuse; Entertainment Industry Foundation; Stand Up To Cancer; Institute of Genetics; Brain Tumour Charity; Terry Fox Research Institute; Canadian Institutes of Health Research; Genome Canada; Compute Canada; Government of Canada; Ontario Institute for Cancer Research; Common Fund; Cancer Research Society; NIH Office of the Director; Van Andel Research Institute; University of Toronto; Brain Tumour Research; National Institute of Neurological Disorders and Stroke; Leidos; Government of Ontario; American Association for Cancer Research","keywords":"Medulloblastoma; Biology; GLI2; Sonic hedgehog; PTCH1; Hedgehog; Transcriptome; Gene; Genetics; GNAS complex locus; Hedgehog signaling pathway; Loss function; Computational biology; Cancer research; Phenotype; Gene expression","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":[0.0001348203,0.00005759723,0.00006527758,0.00001127975,0.0002431736,0.000009959022,0.0004815779,0.0001263706,0.000006687013],"category_scores_gemma":[0.0002591932,0.00004451158,0.00007322243,0.0001115372,0.0001513972,0.000001169177,0.0001782089,0.0002128387,0.000002958916],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000003630938,"about_ca_system_score_gemma":0.00009817327,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000001044654,"about_ca_topic_score_gemma":0.0003667636,"domain_scores_codex":[0.9995017,0.00009461182,0.0001276776,0.00009949281,0.000091101,0.00008538763],"domain_scores_gemma":[0.9986292,0.00008644108,0.00004102282,0.0009571374,0.0002651447,0.00002103126],"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":[0.00002220605,0.0001145269,0.004906212,0.00000806384,0.0001820957,7.036996e-7,0.0001664789,0.00001465105,0.9577572,0.0233271,0.01179722,0.001703547],"study_design_scores_gemma":[0.0002323883,0.000037522,0.02056794,0.00001266849,0.00002453033,0.00001321455,0.0004042877,0.00004488297,0.1578197,0.0002086185,0.8205398,0.00009444149],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6464032,0.3079217,0.0006170056,0.01806274,0.000550198,0.0002378083,0.0001875412,0.00003633493,0.0259835],"genre_scores_gemma":[0.9949447,0.002598498,0.001565303,0.0002184925,0.0000511787,0.00001711031,0.0001462926,0.000007227463,0.0004511805],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8087426,"threshold_uncertainty_score":0.187032,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01547170461301908,"score_gpt":0.28506390514224,"score_spread":0.2695922005292209,"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."}}