{"id":"W4401748746","doi":"10.1101/2024.08.21.608838","title":"Stabilized marker gene identification and functional annotation from single-cell transcriptomic data","year":2024,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hotchkiss Brain Institute; Alberta Children's Hospital; University of Calgary","funders":"","keywords":"Annotation; Transcriptome; Identification (biology); Computational biology; Gene; Biology; Computer science; Genetics; Gene expression; Botany","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":[0.001456103,0.0008978461,0.0007817961,0.001124521,0.0003923622,0.001179998,0.0006111469,0.0005253226,0.001345221],"category_scores_gemma":[0.002807354,0.0002759718,0.0009354994,0.001149071,0.000407748,0.0006858667,0.0007706966,0.0009490091,0.001111581],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003148964,"about_ca_system_score_gemma":0.0007913494,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005972639,"about_ca_topic_score_gemma":0.001376744,"domain_scores_codex":[0.9992234,0.0001406697,0.00005505209,0.0003094479,0.0002176171,0.00005384927],"domain_scores_gemma":[0.9985812,0.0006249598,0.0002320037,0.0002970938,0.0002028954,0.0000619116],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0007226003,0.0001092869,0.01724031,0.0007006925,0.0002622365,0.0003799324,0.0002296846,0.01762765,0.8783732,0.002640293,0.00510083,0.07661333],"study_design_scores_gemma":[0.00009366267,0.0002871919,0.04958428,0.00009360007,0.0001604634,0.0004822075,0.0002603496,0.363508,0.5523602,0.0109703,0.022091,0.000108772],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.2581666,0.0006451834,0.6992756,0.0002432604,0.0001041926,0.0001610658,0.02582106,0.01368059,0.001902518],"genre_scores_gemma":[0.3828992,0.0006136454,0.554199,0.0002201011,0.00005875235,0.000564555,0.05766493,0.001941068,0.001838704],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.001456103,"threshold_uncertainty_score":0.007700682,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02599778120620847,"score_gpt":0.2168653415981821,"score_spread":0.1908675603919736,"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."}}