{"id":"W4409020822","doi":"10.1371/journal.pgen.1011629","title":"Gene expression in soft-shell clam (Mya arenaria) transmissible cancer reveals survival mechanisms during host infection and seawater transfer","year":2025,"lang":"en","type":"article","venue":"PLoS Genetics","topic":"Cancer Research and Treatments","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Prince Edward Island","funders":"National Institute of General Medical Sciences; National Human Genome Research Institute; National Cancer Institute; Foundation for the National Institutes of Health","keywords":"Biology; Population; Transcriptome; Gene; Lineage (genetic); Cancer; Genetics; 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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007499546,0.0001669633,0.0001673621,0.00005756355,0.00009732391,0.00003538993,0.00008454166,0.0001615642,0.00004761597],"category_scores_gemma":[0.000007253112,0.0001608391,0.00005115646,0.0001001449,0.00003821862,0.00000508899,0.00005864433,0.0001283106,0.000002546857],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003898237,"about_ca_system_score_gemma":0.00008107604,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002268992,"about_ca_topic_score_gemma":0.001908477,"domain_scores_codex":[0.9988992,0.00006455526,0.0001698442,0.0004001838,0.0001494628,0.0003167856],"domain_scores_gemma":[0.9996164,0.000006606371,0.00001611047,0.0002165411,0.000047364,0.00009694411],"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":[0.0001928659,0.0001183736,0.0387159,0.0001254688,0.00007613269,0.000007035027,0.00008436933,0.0001122897,0.9589095,0.000002567768,0.00003037546,0.001625173],"study_design_scores_gemma":[0.001573687,0.0001297642,0.02059152,0.0001269103,0.00003493519,0.000002063654,0.00001287765,0.0001494176,0.9767005,0.0002725414,0.0002474535,0.0001583505],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9912158,0.004737778,0.003300688,0.0001383389,0.00009650173,0.0003583519,0.0000388281,0.00001296588,0.0001006974],"genre_scores_gemma":[0.9922565,0.006504833,0.0003260322,0.00004567865,0.00006542139,0.000094984,0.00005700144,0.00002371364,0.000625831],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01812438,"threshold_uncertainty_score":0.6558829,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01574773474602581,"score_gpt":0.2770750426290625,"score_spread":0.2613273078830367,"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."}}