{"id":"W3208714907","doi":"10.1128/mbio.02062-21","title":"Modulation of the Host Cell Transcriptome and Epigenome by Fusobacterium nucleatum","year":2021,"lang":"en","type":"article","venue":"mBio","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":45,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of British Columbia; Canada's Michael Smith Genome Sciences Centre; University of Guelph; Simon Fraser University","funders":"Canadian Institutes of Health Research; Cancer Research UK; Government of Canada","keywords":"Fusobacterium nucleatum; Epigenome; Transcriptome; Host (biology); Computational biology; Metagenomics; Microbiome; Biology; Computer science; Microbiology; Bacteria; Bioinformatics; Genetics; Gene; Gene expression; DNA methylation; Porphyromonas gingivalis","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":[0.00003760779,0.0000570063,0.00006773233,0.000005986538,0.00004485843,0.000008162827,0.00005530979,0.00007333105,0.00002476695],"category_scores_gemma":[0.000003243558,0.00004688868,0.00003741021,0.00003987534,0.0000365343,0.000001376812,0.00003343404,0.00003994297,0.000001985942],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000005892323,"about_ca_system_score_gemma":0.0000401854,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001676409,"about_ca_topic_score_gemma":0.00003121556,"domain_scores_codex":[0.9996043,0.00002782642,0.00009314831,0.000140561,0.0000327104,0.0001014528],"domain_scores_gemma":[0.9997361,0.000001536534,0.00003346555,0.0001668346,0.00003315653,0.00002892475],"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":[0.000006480214,0.00002963446,0.002702512,0.00003225448,0.000005228614,2.190085e-7,0.00008841998,3.175646e-7,0.9956769,0.00001130663,0.001369527,0.00007716785],"study_design_scores_gemma":[0.0002292492,0.00004492735,0.1692496,0.000004977941,0.000007044402,0.000003497843,0.000043197,0.000003442994,0.7737941,0.00000969159,0.05654986,0.00006043591],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9972796,0.001172459,0.00005094907,0.0004817314,0.0001252119,0.00006084361,0.00006535569,0.000002384134,0.0007614241],"genre_scores_gemma":[0.9971786,0.000144739,0.0000681118,0.0002995012,0.00003183808,0.000001045525,0.00006912964,0.000008160263,0.002198862],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2218829,"threshold_uncertainty_score":0.1912065,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00395488782894897,"score_gpt":0.1942261698506579,"score_spread":0.1902712820217089,"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."}}