{"id":"W4412831973","doi":"10.1101/2025.07.31.668010","title":"Engulfing to Adapt: Efferocytosis by Epithelial Cells Triggers Cell State Transitions During Tissue Remodeling","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Phagocytosis and Immune Regulation","field":"Immunology and Microbiology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal; Institute for Research in Immunology and Cancer; McGill University","funders":"","keywords":"Efferocytosis; Cell biology; Tissue remodeling; State (computer science); Cell; Chemistry; Biology; Computer science; Inflammation; Immunology; Biochemistry; Macrophage; In vitro","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":[0.0001039377,0.0001422117,0.0001868068,0.0001028068,0.0001301498,0.0002946409,0.0001256919,0.0002267541,0.001772959],"category_scores_gemma":[0.00006697379,0.00009657608,0.000156233,0.0000856949,0.0001847691,0.0001830609,0.0002395372,0.0005020638,0.0005532457],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002132898,"about_ca_system_score_gemma":0.0001048895,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002909859,"about_ca_topic_score_gemma":0.0003482822,"domain_scores_codex":[0.9999139,0.00001053871,0.00000465601,0.00001923098,0.00002421772,0.0000274781],"domain_scores_gemma":[0.9999537,0.000007961213,0.000009243214,0.00001070787,0.000005690073,0.00001252205],"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":[0.00003436126,0.000006521856,0.0001348317,0.000008149778,0.000001175812,0.00002346792,0.000006758427,0.0000316414,0.999062,0.00009482075,0.00003625391,0.0005599915],"study_design_scores_gemma":[0.000008109968,0.00004886396,0.004702738,0.000002683888,0.000002566333,0.0001267872,0.00002137656,0.0009719325,0.9921321,0.0001002371,0.001879571,0.000002943214],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9901924,0.0007524459,0.006007126,0.0001886956,0.00004494737,0.00001442307,0.0002960253,0.000141827,0.002362053],"genre_scores_gemma":[0.9918824,0.0003216062,0.002735086,0.00008862941,0.000008997288,0.00001551326,0.0003976337,0.00004075477,0.004509555],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001772959,"threshold_uncertainty_score":0.005931199,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00773327640092463,"score_gpt":0.2072504537619198,"score_spread":0.1995171773609951,"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."}}