Author
Institute for Systems BiologyORCID 0000-0003-0128-8643Unclaimed ORCID profile · follow to get notified of new preprints
6 papers
Recent·Most cited
Klaas Jan van Wijk, Tami Leppert, Zhi Sun…·Eric W. Deutsch
The paper develops the Maize PeptideAtlas resource to analyze maize proteomes using MS/MS data, identifying peptides and proteins across diverse genetic backgrounds and conditions.
Amy K. Glen, Chunyu Ma, Luis Mendoza…·David Koslicki
ARAX is a graph-based reasoning tool that integrates knowledge across sources to answer translational biomedical questions.
E. Carl Wood, Amy K. Glen, Lindsey G. Kvarfordt…·Stephen A. Ramsey
RTX-KG2 integrates 70 biomedical knowledge sources into a standards-compliant knowledge graph with a Biolink schema, providing downloadable and queryable versions via API.
Eric W. Deutsch, Yasset Pérez‐Riverol, Jeremy Carver…·Nuno Bandeira
The paper introduces the Universal Spectrum Identifier (USI) to standardize referencing mass spectra in proteomics repositories, enabling transparent traceability of spectral evidence in publications.
David D. Shteynberg, Eric W. Deutsch, David S Campbell…·Robert L. Moritz
PTMProphet provides localization confidence for post-translational modifications in proteomics data, improving accuracy for downstream analysis.
Pierre‐Alain Binz, Jim Shofstahl, Juan Antonio Vizcaíno…·Eric W. Deutsch
The paper introduces PEFF, a new format for proteomics data that enhances FASTA with metadata for sequence variants and PTMs, enabling better analysis in proteogenomics and top-down proteomics.