{"id":"W2108102049","doi":"10.1038/nbt.2831","title":"The binary protein-protein interaction landscape of Escherichia coli","year":2014,"lang":"en","type":"article","venue":"Nature Biotechnology","topic":"Bioinformatics and Genomic Networks","field":"Biochemistry, Genetics and Molecular Biology","cited_by":256,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto; University of Regina","funders":"National Institute of General Medical Sciences","keywords":"Interactome; Escherichia coli; Computational biology; Proteome; Protein–protein interaction; Multiprotein complex; Biology; Function (biology); Saccharomyces cerevisiae; Flagellum; Genetics; Yeast; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002465603,0.0001243405,0.0001276591,0.00004507736,0.0001027454,0.00001345905,0.000331074,0.001102605,0.000006718803],"category_scores_gemma":[0.0001236606,0.00008737014,0.00006495746,0.0001279639,0.0001525315,0.000002692098,0.000170259,0.0005444399,0.000008559332],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000007405245,"about_ca_system_score_gemma":0.00002882996,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00000397642,"about_ca_topic_score_gemma":0.00002171174,"domain_scores_codex":[0.999281,0.00003829526,0.0002157022,0.0001854936,0.0000743614,0.000205185],"domain_scores_gemma":[0.9992471,0.00001235862,0.0001734381,0.0004809691,0.00005905871,0.00002711404],"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":[0.0001063804,0.0000221351,0.00002325554,0.00001731613,0.0000372199,3.070139e-7,0.000006802466,0.00001243262,0.9674335,0.01253321,0.002532251,0.01727517],"study_design_scores_gemma":[0.0003000337,0.0004524782,0.0001176156,0.00001988991,0.000007243622,0.000005854158,0.00006373099,0.001093732,0.631461,0.001142189,0.3652095,0.0001267201],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9908106,0.001675472,0.002222759,0.002503521,0.000318394,0.000350765,0.000005817696,0.00003434924,0.00207832],"genre_scores_gemma":[0.9975969,0.00008914273,0.00151279,0.0001740186,0.0001589512,0.00002684787,0.00002872333,0.00001349713,0.0003991432],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3626773,"threshold_uncertainty_score":0.85043,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.002914009312652998,"score_gpt":0.2137215584085885,"score_spread":0.2108075490959355,"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."}}