Author

Jim Shofstahl

Thermo Fisher Scientific (United States)ORCID 0000-0001-5968-1742Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Assay:proteomics· 3 Research Focus:database / resource· 2 Research Focus:benchmarking· 1 Approach:experimental assay· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Yasset Pérez‐RiveroliD· 3 shared Eric W. DeutschiD· 2 shared Harald BarsnesiD· 2 shared Juan Antonio VizcaínoiD· 2 shared Luis MendozaiD· 2 shared Pierre‐Alain BinziD· 2 shared Tim Van Den BosscheiD· 2 shared Andrew CollinsiD· 1 shared

Activity by Year

2019-2021 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 42 mutual co-author links

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3 shared papersBioinformatics

Yasset Pérez‐RiverolORCID

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3 papers

Recent·Most cited

BioinformaticsNature MethodsPeer-reviewedJun 28, 2021

Universal Spectrum Identifier for mass spectra

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.

100 citationstop 2%

proteomicsdatabase / resource

𝕏 PostBluesky

BioinformaticsJournal of Proteome ResearchPeer-reviewedNov 22, 2019

ThermoRawFileParser: modular, scalable and cross-platform RAW file conversion

Niels Hulstaert, Jim Shofstahl, Timo T. Sachsenberg…·Yasset Pérez‐Riverol

ThermoRawFileParser converts Thermo RAW files to open formats like mzML, enabling broader use with workflow systems and providing a user-friendly interface.

256 citationstop 1%

proteomicsexperimental assay

𝕏 PostBluesky

BioinformaticsJournal of Proteome ResearchPeer-reviewedMay 13, 2019

Proteomics Standards Initiative Extended FASTA Format (PEFF)

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.

34 citations

proteomicsdatabase / resource

𝕏 PostBluesky