{"id":"W4226280746","doi":"10.1038/s41467-021-27492-1","title":"Cell-specific alterations in Pitx1 regulatory landscape activation caused by the loss of a single enhancer","year":2021,"lang":"en","type":"article","venue":"Nature Communications","topic":"Cancer-related molecular mechanisms research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":31,"is_retracted":false,"has_abstract":true,"ca_institutions":"Montreal Clinical Research Institute","funders":"Institute of Genetics and Genomics of Geneva; Wyss Center for Bio and Neuroengineering; Les Laboratories Pierre Fabre; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Enhancer; Biology; Phenotype; Locus (genetics); Cell biology; Loss function; Transcriptome; Genetics; Gene; Chromatin; Computational biology; Transcription factor; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001171038,0.0002338929,0.0002381143,0.0002360847,0.0001153505,0.0003465875,0.0001858038,0.0002513629,0.001105549],"category_scores_gemma":[0.0001586421,0.0001541163,0.0001764291,0.0001149693,0.0002727913,0.0001920359,0.0003472326,0.0005631139,0.0002507752],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001343834,"about_ca_system_score_gemma":0.0001221662,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002946544,"about_ca_topic_score_gemma":0.0004438944,"domain_scores_codex":[0.9998455,0.00001279025,0.000009254358,0.00005484691,0.00004495212,0.00003259591],"domain_scores_gemma":[0.9998197,0.00004521098,0.00005673946,0.00003204074,0.00001122647,0.00003511384],"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":[0.00001632828,0.000003188057,0.0003094106,0.000006888864,0.00000154765,0.00004191564,0.000004632093,0.00003343626,0.9991084,0.00002950363,0.000004488376,0.0004403528],"study_design_scores_gemma":[0.000002794394,0.00005621026,0.01687049,0.000002827603,0.0000107047,0.0005406892,0.00002796886,0.0008251439,0.9807575,0.00003985497,0.000862901,0.000002969666],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9935172,0.0005379465,0.004891125,0.00002776118,0.0000121367,0.000009248924,0.0002335886,0.00008469481,0.0006863794],"genre_scores_gemma":[0.9953682,0.0002610929,0.001783659,0.00003137943,0.000004302404,0.00001680481,0.0003931425,0.00004114301,0.002100368],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001105549,"threshold_uncertainty_score":0.003698409,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01377846857998022,"score_gpt":0.2844331652533955,"score_spread":0.2706546966734152,"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."}}