{"id":"W2036145061","doi":"10.1371/journal.pone.0088943","title":"Inferring Domain-Domain Interactions from Protein-Protein Interactions with Formal Concept Analysis","year":2014,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Rough Sets and Fuzzy Logic","field":"Computer Science","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Memorial University of Newfoundland","funders":"Memorial University of Newfoundland; Concordia University; Compute Canada","keywords":"Domain (mathematical analysis); Protein domain; HAMP domain; Computational biology; Protein–protein interaction; Computer science; Cyclic nucleotide-binding domain; Function (biology); Biology; Genetics; Gene; Mathematics; Peptide sequence","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":[0.0001768664,0.0002122989,0.0003723186,0.000263341,0.0003380014,0.0003144836,0.0006329772,0.00004597717,0.0001893551],"category_scores_gemma":[0.0000415525,0.000172922,0.000125554,0.0008404195,0.00007003058,0.001289768,0.0002725443,0.0003453734,0.0001182356],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008417357,"about_ca_system_score_gemma":0.00003584879,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003692,"about_ca_topic_score_gemma":0.0005377522,"domain_scores_codex":[0.9982466,0.0001332457,0.0003263442,0.000484492,0.0004144832,0.0003948587],"domain_scores_gemma":[0.9986019,0.0001100408,0.0001994101,0.0008134546,0.0001195633,0.0001556301],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"theoretical_or_conceptual","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0005915184,0.01495346,0.03375404,0.0002394883,0.02420017,0.0001972212,0.03285574,0.005319352,0.3641137,0.4609633,0.0005330412,0.06227887],"study_design_scores_gemma":[0.008534733,0.003637833,0.06274074,0.002567735,0.003307009,0.00004558441,0.002413763,0.5519022,0.1554766,0.1838769,0.02010426,0.005392683],"study_design_candidate":"theoretical_or_conceptual","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.476066,0.000009747787,0.51748,0.0007809641,0.0000363054,0.0003015047,0.00001005685,0.0001475933,0.005167842],"genre_scores_gemma":[0.7604426,5.693449e-7,0.2388562,0.0001601639,0.0001408337,0.0001568701,0.00002363347,0.00001136796,0.0002077675],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.5465828,"threshold_uncertainty_score":0.7051556,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03201335693303965,"score_gpt":0.2277858533368542,"score_spread":0.1957724964038145,"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."}}