{"id":"W4250447984","doi":"10.1007/978-1-60327-015-1_31","title":"The Cruciform DNA Mobility Shift Assay: A Tool to Study Proteins that Recognize Bent DNA","year":2009,"lang":"en","type":"book-chapter","venue":"Methods in molecular biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hôtel-Dieu de Québec","funders":"","keywords":"Cruciform; Electrophoretic mobility shift assay; DNA; DNA-binding protein; HMG-box; Bent molecular geometry; DNA binding site; Molecular biology; Biophysics; Biology; Computational biology; Chemistry; Genetics; Gene; Transcription factor; Materials science; Promoter; 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":[0.0004161829,0.0009614973,0.0008546676,0.00141962,0.000372754,0.0009325867,0.001250175,0.0008182349,0.005442671],"category_scores_gemma":[0.0001961252,0.0004876942,0.0003637886,0.0008672118,0.0007065975,0.0009979816,0.0007895319,0.001700106,0.008095657],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005340226,"about_ca_system_score_gemma":0.0002636357,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003276918,"about_ca_topic_score_gemma":0.0007396921,"domain_scores_codex":[0.9997316,0.00002823914,0.00001111645,0.00008359332,0.0001263765,0.00001909914],"domain_scores_gemma":[0.9998856,0.0000481944,0.00001056356,0.00001357295,0.00002631636,0.0000156703],"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":[0.0001168669,0.0001142967,0.0004348411,0.0008444999,0.00003143091,0.0002320152,0.0001771441,0.0004533659,0.7832065,0.0205886,0.02345095,0.1703495],"study_design_scores_gemma":[0.00001328203,0.0001168921,0.001519482,0.0001086575,0.00002871863,0.001927531,0.00008983293,0.001432332,0.374299,0.008321082,0.6120866,0.00005665081],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.03782483,0.2283258,0.5401408,0.00291574,0.00336734,0.0004072325,0.004312739,0.006188936,0.1765166],"genre_scores_gemma":[0.09359884,0.1339737,0.3904721,0.002014472,0.0004469508,0.0007209814,0.00659273,0.001319403,0.3708609],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.005442671,"threshold_uncertainty_score":0.01820755,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02126470460814233,"score_gpt":0.3312481124106401,"score_spread":0.3099834078024977,"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."}}