title: Are proteins a redundant ontology? Epistemological limitations in the analysis of multistate species.
abstract: Advances in proteomics have exponentially increased the numbers of post-translational modifications identified, the resulting volume of data is overwhelming both databases and empiricists. We review methodologies for chemical and functional PTM assignment. Using β-oxidation as a paradigm, we discuss epistemic limitations and conceptual approaches to resolving them combining relational biology, proteomics, and the erosion of "protein" and "metabolite" as distinct ontologies.
authors: Molecular Gastroenterology Research Group, Academic Unit of Surgical Oncology, Department of Oncology, University of Sheffield, UK. b.m.corfe@sheffield.ac.uk.
authors: Bernard M
authors: BM
authors: Corfe
authors: Caroline A
authors: CA
authors: Evans
mesh_terms: D030562:Databases, Protein; D006801:Humans; D013058:Mass Spectrometry; D008958:Models, Molecular; D011499:Protein Processing, Post-Translational; D011506:Proteins / Q000737:chemistry / Q000378:metabolism*; D040901:Proteomics
chemical_list: D011506:Proteins