{"id":"W4206229719","doi":"10.1038/s41587-021-01160-7","title":"Massively parallel phenotyping of coding variants in cancer with Perturb-seq","year":2022,"lang":"en","type":"article","venue":"Nature Biotechnology","topic":"Cancer Genomics and Diagnostics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":100,"is_retracted":false,"has_abstract":false,"ca_institutions":"Princess Margaret Cancer Centre","funders":"National Institute of Allergy and Infectious Diseases; National Cancer Institute; Broad Institute; Howard Hughes Medical Institute","keywords":"KRAS; Phenotype; Genome; Cancer genome sequencing; Massive parallel sequencing; Proteogenomics; Categorization; Cancer; Coding (social sciences)","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00009197756,0.0001197887,0.0001738483,0.0001401901,0.00006879563,0.000004460293,0.0002755908,0.0004201759,0.00004708264],"category_scores_gemma":[0.00006517914,0.0001155938,0.00003600759,0.0002582191,0.00008809548,0.000001594038,0.0002798949,0.0005357355,4.12858e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007002955,"about_ca_system_score_gemma":0.0001396571,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001282787,"about_ca_topic_score_gemma":0.0003393391,"domain_scores_codex":[0.9991608,0.0000235343,0.0001526647,0.0003403743,0.00009692127,0.0002257338],"domain_scores_gemma":[0.9995294,0.00001614232,0.0001122286,0.0002810729,0.00003738237,0.00002374688],"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":[0.0007376063,0.0001929623,0.008297492,0.00003656936,0.0001246175,0.00005344169,0.0001124411,0.004006473,0.9452145,0.02354757,0.002609474,0.01506685],"study_design_scores_gemma":[0.008097825,0.002501377,0.02694438,0.0001212517,0.0001210275,0.0002511446,0.001406667,0.002906054,0.6549299,0.003291111,0.2978192,0.001610047],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9822491,0.01017142,0.001783744,0.004162421,0.0004397041,0.0003166712,0.0001870136,0.00002603154,0.0006639184],"genre_scores_gemma":[0.9971495,0.0007880547,0.001188991,0.0006042813,0.00006244063,0.00005940211,0.00004906888,0.00001978259,0.00007851387],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2952098,"threshold_uncertainty_score":0.471378,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006440986439491554,"score_gpt":0.2400747074736748,"score_spread":0.2336337210341833,"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."}}