Blar i Faculty of Psychology på forfatter "Cox, Juergen"
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MaxDIA enables library-based and library-free data-independent acquisition proteomics
Sinitcyn, Pavel; Hamzeiy, Hamid; Salinas Soto, Favio; Itzhak, Daniel; McCarthy, Frank; Wichmann, Christoph; Steger, Martin; Ohmayer, Uli; Distler, Ute; Kaspar-Schoenefeld, Stephanie; Prianichnikov, Nikita; Yılmaz, Şule; Rudolph, Jan Daniel; Tenzer, Stefan; Perez-Riverol, Yasset; Nagaraj, Nagarjuna; Humphrey, Sean J.; Cox, Juergen (Journal article; Peer reviewed, 2021)MaxDIA is a software platform for analyzing data-independent acquisition (DIA) proteomics data within the MaxQuant software environment. Using spectral libraries, MaxDIA achieves deep proteome coverage with substantially ... -
Perseus plugin “Metis” for metabolic-pathway-centered quantitative multi-omics data analysis for static and time-series experimental designs
Hamzeiy, Hamid; Ferretti, Daniela; Robles, Maria S.; Cox, Juergen (Journal article; Peer reviewed, 2022)We introduce Metis, a new plugin for the Perseus software aimed at analyzing quantitative multi-omics data based on metabolic pathways. Data from different omics types are connected through reactions of a genome-scale ... -
Prediction of peptide mass spectral libraries with machine learning
Cox, Juergen (Journal article; Peer reviewed, 2022)The recent development of machine learning methods to identify peptides in complex mass spectrometric data constitutes a major breakthrough in proteomics. Longstanding methods for peptide identification, such as search ... -
Tracing back variations in archaeal ESCRT-based cell division to protein domain architectures
Frohn, Béla P.; Härtel, Tobias; Cox, Juergen; Schwille, Petra (Journal article; Peer reviewed, 2022)The Endosomal Sorting Complex Required for Transport (ESCRT) system is a multi-protein machinery that is involved in cell division of both Eukaryotes and Archaea. This spread across domains of life suggests that a precursor ...