{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Rolfs Z"],"funding":["National Institute of General Medical Sciences","NIGMS NIH HHS"],"pagination":["4101-4105"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC8764746"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["20(8)"],"pubmed_abstract":["Proteoform identification is required to fully understand the biological diversity present in a sample. However, these identifications are often ambiguous because of the challenges in analyzing full length proteins by mass spectrometry. A five-level proteoform classification system was recently developed to delineate the ambiguity of proteoform identifications and to allow for comparisons across software platforms and acquisition methods. Widespread adoption of this system requires software tools to provide classification of the proteoform identifications. We describe here an implementation of the five-level classification system in the software program MetaMorpheus, which provides both bottom-up and top-down identifications. Additionally, we developed a stand-alone program called Proteofo"],"journal":["Journal of proteome research"],"pubmed_title":["Automated Assignment of Proteoform Classification Levels."],"pmcid":["PMC8764746"],"funding_grant_id":["R35GM126914","R35 GM126914"],"pubmed_authors":["Smith LM","Rolfs Z"],"additional_accession":[]},"is_claimable":false,"name":"Automated Assignment of Proteoform Classification Levels.","description":"Proteoform identification is required to fully understand the biological diversity present in a sample. However, these identifications are often ambiguous because of the challenges in analyzing full length proteins by mass spectrometry. A five-level proteoform classification system was recently developed to delineate the ambiguity of proteoform identifications and to allow for comparisons across software platforms and acquisition methods. Widespread adoption of this system requires software tools to provide classification of the proteoform identifications. We describe here an implementation of the five-level classification system in the software program MetaMorpheus, which provides both bottom-up and top-down identifications. Additionally, we developed a stand-alone program called Proteofo","dates":{"release":"2021-01-01T00:00:00Z","publication":"2021 Aug","modification":"2025-04-19T21:43:21.613Z","creation":"2025-04-19T21:43:21.613Z"},"accession":"S-EPMC8764746","cross_references":{"pubmed":["34181432"],"doi":["10.1021/acs.jproteome.1c00417"]}}