{"id":"W4390011662","doi":"10.21769/bioprotoc.4904","title":"Identifying Antigenic Switching by Clonal Cell Barcoding and Nanopore Sequencing in <em>Trypanosoma brucei</em>","year":2023,"lang":"en","type":"article","venue":"BIO-PROTOCOL","topic":"Trypanosoma species research and implications","field":"Medicine","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; Alliance de recherche numérique du Canada; Islamic Development Bank","keywords":"Biology; Genetics; Gene; Trypanosoma brucei; Population; DNA sequencer; DNA sequencing; Computational biology","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":[0.0006717757,0.0004718108,0.0005379235,0.0006497896,0.0004350865,0.0008418466,0.0007542755,0.0008104526,0.001829835],"category_scores_gemma":[0.001861112,0.0003977637,0.0004589289,0.0005206311,0.0004830776,0.0005497155,0.0007875117,0.0009737251,0.001356329],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005972398,"about_ca_system_score_gemma":0.0005146737,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001658193,"about_ca_topic_score_gemma":0.00383833,"domain_scores_codex":[0.9994016,0.00005699888,0.00003417242,0.0002365286,0.0002116921,0.00005904853],"domain_scores_gemma":[0.9990777,0.0003527838,0.0001618545,0.0001302379,0.0002159644,0.00006145472],"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":[0.0001169317,0.00004703421,0.003467193,0.0002783709,0.00003949815,0.0001506137,0.0002283601,0.002174696,0.9437149,0.002174758,0.002233093,0.04537462],"study_design_scores_gemma":[0.00001469168,0.0001053315,0.006475424,0.00003572341,0.00005564961,0.0002663786,0.00009159883,0.05047438,0.9232907,0.001544355,0.01758979,0.00005601391],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"protocol","genre_scores_codex":[0.3096636,0.001504764,0.6610718,0.0005511811,0.0002578366,0.0004300456,0.00880156,0.01018537,0.007533805],"genre_scores_gemma":[0.3134925,0.0009631468,0.6681148,0.000731891,0.00005995724,0.0007242339,0.01016151,0.001017999,0.004734011],"genre_candidate":"protocol","genre_consensus":null,"teacher_disagreement_score":0.001829835,"threshold_uncertainty_score":0.006121397,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04577567489807454,"score_gpt":0.3415799068955034,"score_spread":0.2958042319974288,"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."}}