{"id":"W2118087641","doi":"10.1093/bioinformatics/btl530","title":"sGAL: a computational method for finding surface exposed sites in proteins suitable for Cys-mediated cross-linking","year":2006,"lang":"en","type":"article","venue":"Bioinformatics","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":13,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Canadian Institutes of Health Research","keywords":"Atom (system on chip); Surface (topology); Steric effects; Computer science; Protein Data Bank (RCSB PDB); Crystallography; Chemistry; Algorithm; Physics; Mathematics; Stereochemistry; Geometry","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.001280198,0.001769392,0.001512134,0.001403859,0.001239962,0.001475829,0.004153612,0.001784457,0.01830884],"category_scores_gemma":[0.00244953,0.0009187615,0.001689753,0.001195398,0.0008790943,0.001650457,0.001732104,0.00143997,0.003513484],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0009725944,"about_ca_system_score_gemma":0.002129098,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003751254,"about_ca_topic_score_gemma":0.00608649,"domain_scores_codex":[0.9997366,0.0000766262,0.00001342427,0.00005749238,0.00008466312,0.00003119889],"domain_scores_gemma":[0.9989921,0.000647945,0.0000603736,0.00008714027,0.0001265885,0.00008584166],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001260011,0.0003902333,0.005593362,0.001802321,0.0004442966,0.0006651952,0.0004614075,0.6356779,0.01235039,0.03407265,0.04765125,0.259631],"study_design_scores_gemma":[0.0002121996,0.0000442579,0.0001583704,0.00002428114,0.00002858699,0.00004835535,0.00003035967,0.985011,0.002061112,0.007174326,0.00519271,0.00001443012],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"methods","genre_gemma":"methods","genre_scores_codex":[0.03340505,0.000387872,0.9253918,0.0003325858,0.0001178919,0.0002373564,0.002229403,0.03349303,0.004405075],"genre_scores_gemma":[0.1485986,0.0004120861,0.8364497,0.0002488604,0.00007286589,0.001380378,0.005024792,0.004642063,0.003170653],"genre_candidate":"methods","genre_consensus":"methods","teacher_disagreement_score":0.01830884,"threshold_uncertainty_score":0.0612492,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0159941549849161,"score_gpt":0.2967423365172292,"score_spread":0.2807481815323131,"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."}}