{"id":"W4399457078","doi":"10.1101/2024.06.06.597807","title":"Molecular and spatial transcriptomic classification of midbrain dopamine neurons and their alterations in a LRRK2 <sup>G2019S</sup> model of Parkinson’s disease","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":7,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University; Montreal Neurological Institute and Hospital","funders":"","keywords":"Midbrain; Neuroscience; Substantia nigra; Biology; Dopamine; Transcriptome; Gene; Central nervous system; Genetics; Dopaminergic; Gene expression","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":[0.0001938633,0.0003811124,0.0004918716,0.0007917805,0.0002752487,0.0004450587,0.0002126717,0.0003592181,0.001300599],"category_scores_gemma":[0.0001164795,0.0002192331,0.0005494934,0.0003759472,0.0002540149,0.0001956159,0.0002709298,0.0006509176,0.0004768487],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002932719,"about_ca_system_score_gemma":0.0001680652,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001287604,"about_ca_topic_score_gemma":0.002753821,"domain_scores_codex":[0.9997597,0.00001203545,0.00001778762,0.00009920777,0.00007166325,0.00003966822],"domain_scores_gemma":[0.9998512,0.00001422339,0.00005230874,0.0000129094,0.00003116517,0.0000381459],"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":[0.0001339575,0.00001122116,0.002234392,0.00005463008,0.00002313168,0.00006671697,0.00003760364,0.0001618582,0.9953192,0.00005547387,0.0001021216,0.001799718],"study_design_scores_gemma":[0.00004547986,0.0006293786,0.2196815,0.00005660891,0.0002453297,0.001290164,0.0004553443,0.0106142,0.7565091,0.0005265106,0.009877258,0.00006927936],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9675333,0.001083241,0.01731458,0.0001169352,0.0000484124,0.00006988526,0.01208268,0.0006851648,0.001065719],"genre_scores_gemma":[0.9577311,0.0009185308,0.0228404,0.0002039369,0.00001459467,0.0002415408,0.0135454,0.0003612924,0.004143172],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001300599,"threshold_uncertainty_score":0.00435096,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0147085934537782,"score_gpt":0.2092213970356685,"score_spread":0.1945128035818903,"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."}}