{"id":"W4410418781","doi":"10.1101/2025.05.09.653178","title":"Spatial epigenomic niches underlie glioblastoma cell state plasticity","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":9,"is_retracted":false,"has_abstract":true,"ca_institutions":"Alberta Children's Hospital; University of Calgary","funders":"","keywords":"Epigenomics; Glioblastoma; Biology; Ecological niche; Phenotypic plasticity; Neuroscience; Ecology; Cancer research; DNA methylation; Genetics; Habitat","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007046549,0.00008610479,0.0001094461,0.0001999715,0.00008955696,0.0003794448,0.00009350957,0.0001547849,0.0006652159],"category_scores_gemma":[0.0002037906,0.0001247293,0.00009674845,0.0001502651,0.0002495293,0.0002141398,0.0002646453,0.0001490711,0.0001687438],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001624786,"about_ca_system_score_gemma":0.0001100584,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005022094,"about_ca_topic_score_gemma":0.00116738,"domain_scores_codex":[0.9999387,0.000007910892,0.000002973068,0.00001768762,0.00001551439,0.00001723339],"domain_scores_gemma":[0.999931,0.00001127075,0.00002222216,0.00001160289,0.000009607948,0.00001426225],"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":[0.00005673448,0.000004058528,0.003806431,0.0000134514,0.000003502105,0.00004685112,0.00005071503,0.0002568083,0.9922045,0.0007444085,0.00003634942,0.002776054],"study_design_scores_gemma":[0.00001112557,0.0001036808,0.2838216,0.00001144598,0.00002024795,0.0007521071,0.0002684211,0.0117691,0.6972548,0.002898658,0.003065553,0.00002315816],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9912755,0.0003514815,0.007138564,0.00004188719,0.000004467088,0.000006244777,0.0002183491,0.00007189342,0.0008915474],"genre_scores_gemma":[0.9984552,0.00007822522,0.001034336,0.00001029905,0.000001935793,0.000003996738,0.00009790889,0.000007204709,0.0003109156],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0006652159,"threshold_uncertainty_score":0.002225399,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00969396850329924,"score_gpt":0.2026389596664168,"score_spread":0.1929449911631176,"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."}}