{"id":"W2149973207","doi":"10.1677/joe-08-0526","title":"Genome-wide identification of DNA–protein interactions using chromatin immunoprecipitation coupled with flow cell sequencing","year":2009,"lang":"en","type":"review","venue":"Journal of Endocrinology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":43,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; BC Cancer Agency","funders":"Michael Smith Health Research BC","keywords":"Chromatin immunoprecipitation; Chromatin; Immunoprecipitation; ChIP-sequencing; Transcription factor; ChIP-on-chip; Biology; Computational biology; Histone; Genome; ChIA-PET; Identification (biology); DNA; Function (biology); DNA sequencing; Gene; Genetics; Gene expression; Chromatin remodeling; Promoter","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":[0.0002088833,0.00028474,0.0009123281,0.0002778935,0.00006549991,0.00002755329,0.0003487337,0.0001855632,0.00001311092],"category_scores_gemma":[0.00008132637,0.0002426524,0.0003407724,0.0001519714,0.00006891307,0.00001216638,0.00006115932,0.0003302222,0.000003367385],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000196186,"about_ca_system_score_gemma":0.0005639558,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000009365937,"about_ca_topic_score_gemma":0.00001084925,"domain_scores_codex":[0.9978418,0.0001600439,0.001371181,0.0002348227,0.0001456708,0.0002464554],"domain_scores_gemma":[0.9963592,0.00003854848,0.00281824,0.0003600542,0.0003723568,0.00005158888],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.00006323797,0.0001358281,0.00001055754,0.002283727,0.0005607763,0.00003787071,0.0001114006,0.003905791,0.9375345,0.00001435027,0.00001204752,0.05532991],"study_design_scores_gemma":[0.01059788,0.01259014,0.001964553,0.02953558,0.01366817,0.02719678,0.002020409,0.01414052,0.2658181,0.001127687,0.6152245,0.006115704],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"review","genre_gemma":"review","genre_scores_codex":[0.3162469,0.6725026,0.01053589,0.00001072561,0.0002352387,0.0003645336,0.0000266901,0.000003917722,0.00007351634],"genre_scores_gemma":[0.07724608,0.9114591,0.01059729,0.00001195485,0.000247597,0.00001188753,0.0002096373,0.00005911606,0.0001573391],"genre_candidate":"review","genre_consensus":"review","teacher_disagreement_score":0.6717164,"threshold_uncertainty_score":0.9895076,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02068113102767384,"score_gpt":0.2839382759231515,"score_spread":0.2632571448954777,"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."}}