{"id":"W4387557056","doi":"10.1016/j.xpro.2023.102638","title":"Protocol for generation of a time-resolved cellular interactome during tissue remodeling in adult mice","year":2023,"lang":"en","type":"article","venue":"STAR Protocols","topic":"Muscle Physiology and Disorders","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia","funders":"Canadian Institutes of Health Research; Dennis and Phyllis Washington Foundation; University of British Columbia","keywords":"Interactome; Crosstalk; Biology; Cell biology; RNA; Computational biology; Skeletal muscle; Bioinformatics; Anatomy; Genetics; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001781868,0.000120033,0.0001510105,0.00007429783,0.00004807419,0.000008526836,0.0001352433,0.0001279565,0.00002428557],"category_scores_gemma":[0.0001075184,0.0001186453,0.0000567476,0.0001181419,0.00002971847,0.000006928806,0.00006838886,0.00006181779,0.00001254822],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000009920682,"about_ca_system_score_gemma":0.00005449025,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001936768,"about_ca_topic_score_gemma":0.000036467,"domain_scores_codex":[0.9990637,0.00006115287,0.000294794,0.0002931531,0.000069948,0.0002172398],"domain_scores_gemma":[0.9995236,0.00001074559,0.0001046837,0.000223099,0.000107691,0.00003017082],"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":[0.0009083507,0.0000645967,0.0001068251,0.0003179796,0.000009475426,7.661844e-7,0.00008008279,0.0009278675,0.9965103,0.00001470304,0.000430577,0.0006285218],"study_design_scores_gemma":[0.002478003,0.0004296183,0.0002046758,0.0001023399,0.000002171405,4.00445e-7,0.00002993578,0.00751347,0.9838089,0.000169713,0.005115916,0.0001448205],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"protocol","genre_gemma":"protocol","genre_scores_codex":[0.4468165,0.000001148312,0.000971076,0.00003717376,0.00001141225,0.5520328,0.00001775367,0.00001870848,0.00009335853],"genre_scores_gemma":[0.09910524,4.15405e-7,0.0008729672,0.00003338557,0.0001088286,0.8994554,0.0001464969,0.00002113765,0.0002561626],"genre_candidate":"protocol","genre_consensus":"protocol","teacher_disagreement_score":0.3477113,"threshold_uncertainty_score":0.4838214,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03963735188770033,"score_gpt":0.3518629248976358,"score_spread":0.3122255730099355,"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."}}