{"id":"W4309326277","doi":"10.1101/2022.11.17.516951","title":"Integrated single cell analysis reveals co-evolution of malignant B cells and the tumor microenvironment in transformed follicular lymphoma","year":2022,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Lymphoma Diagnosis and Treatment","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Terry Fox Research Institute; University of Victoria; University of British Columbia; Spinal Cord Injury BC","funders":"Terry Fox Research Institute; Genome British Columbia; BC Cancer Foundation; Paul G. Allen Frontiers Group; Canadian Institutes of Health Research; Genome Canada","keywords":"Follicular lymphoma; Biology; Tumor microenvironment; Phenotype; Lymphoma; Transformation (genetics); Malignant transformation; CD8; Transcriptome; Somatic evolution in cancer; Cancer research; Cell; Mantle cell lymphoma; Computational biology; Gene; Immunology; Genetics; Tumor cells; Immune system; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002775354,0.0003567357,0.0003816079,0.0005380233,0.0002100499,0.0006244179,0.0002877953,0.0005454843,0.004776086],"category_scores_gemma":[0.0003322876,0.0001917358,0.0004614794,0.0004133039,0.0001929919,0.0003221228,0.0003709152,0.0006373595,0.0006066074],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000286442,"about_ca_system_score_gemma":0.0002101394,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001394126,"about_ca_topic_score_gemma":0.001677671,"domain_scores_codex":[0.9998772,0.00001141544,0.000004459502,0.00004863285,0.00003253005,0.00002579105],"domain_scores_gemma":[0.9998782,0.00004223406,0.00003162265,0.0000117634,0.00002033364,0.0000158638],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.000786416,0.0001900488,0.04514965,0.001580183,0.000548313,0.00118218,0.0004717162,0.04945545,0.8228702,0.003722371,0.01971403,0.05432941],"study_design_scores_gemma":[0.0001232065,0.0006609434,0.2602281,0.0001528904,0.0005141846,0.001215702,0.0008644526,0.4887874,0.2098943,0.01032964,0.02702336,0.0002057838],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9229699,0.002851091,0.03399966,0.001157713,0.0002146608,0.00005449974,0.03183777,0.003158133,0.00375653],"genre_scores_gemma":[0.9632182,0.001285297,0.01922699,0.0003190258,0.00006005058,0.00007278312,0.01354861,0.0002260619,0.002042923],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004776086,"threshold_uncertainty_score":0.01597762,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008296112741222546,"score_gpt":0.2007494035534043,"score_spread":0.1924532908121818,"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."}}