{"id":"W4225688524","doi":"10.1038/s41592-022-01436-z","title":"Antigen identification and high-throughput interaction mapping by reprogramming viral entry","year":2022,"lang":"en","type":"article","venue":"Nature Methods","topic":"Virus-based gene therapy research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":119,"is_retracted":false,"has_abstract":false,"ca_institutions":"","funders":"National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences; National Institute on Drug Abuse; National Research Foundation Singapore; National Cancer Institute; National Research Foundation; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology; National Heart, Lung, and Blood Institute; Michelson Prize and Grants; Schmidt Futures; Pfizer; Ludwig Center for Molecular Oncology; Cancer Research Foundation; Canadian Institutes of Health Research; National Science Foundation; Damon Runyon Cancer Research Foundation; Cancer Research Institute; National Institutes of Health; Pew Charitable Trusts; U.S. Department of Health and Human Services; Ludwig Center at Harvard; Government of Canada; David and Lucile Packard Foundation; U.S. Department of Defense","keywords":"Biology; Computational biology; Reprogramming; Antigen; DECIPHER; Chimeric antigen receptor; Virology; Cell biology; Immune system; Genetics; T cell; Cell","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004195413,0.0005108149,0.0004980189,0.0004832625,0.0003394008,0.001269031,0.000609611,0.0005563913,0.002204698],"category_scores_gemma":[0.0004256208,0.0003701788,0.0004762972,0.0003882417,0.0003824559,0.0006746816,0.001203213,0.001204509,0.001434789],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004673633,"about_ca_system_score_gemma":0.0001857734,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002863213,"about_ca_topic_score_gemma":0.0006115626,"domain_scores_codex":[0.9994988,0.0000648384,0.00002883568,0.0001476743,0.0001610297,0.00009883309],"domain_scores_gemma":[0.9997615,0.00007984532,0.0000428869,0.00005727349,0.00002781049,0.00003065304],"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":[0.00003573067,0.00001774502,0.0001039374,0.00001889187,0.000004107586,0.00001954938,0.00001964923,0.00009946543,0.995557,0.0004787004,0.00006682947,0.003578407],"study_design_scores_gemma":[0.000007332625,0.00004870945,0.0008666571,0.000003231551,0.000008699947,0.000133223,0.00002198312,0.002483266,0.9934303,0.0002666794,0.002720541,0.000009393465],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"methods","genre_scores_codex":[0.7510477,0.0019124,0.2331776,0.0003408389,0.0001603635,0.000333461,0.0009392536,0.001335241,0.01075319],"genre_scores_gemma":[0.9063588,0.001451313,0.07810031,0.0002174876,0.00003427365,0.000236247,0.001419322,0.0003216966,0.01186053],"genre_candidate":"methods","genre_consensus":null,"teacher_disagreement_score":0.002204698,"threshold_uncertainty_score":0.007375419,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01837693257654908,"score_gpt":0.393387570340835,"score_spread":0.3750106377642859,"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."}}