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A Module for Analyzing Interactomes via APEX-MS Integrated into PatternLab for Proteomics

D. M. Santos, Marlon ; C. Camillo-Andrade, Amanda ; Rodriguez, Azalia ; Durán, Rosario

Journal of the American Society for Mass Spectrometry, 2024-05, Vol.35 (5), p.1055-1058 [Periódico revisado por pares]

United States: American Chemical Society

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  • Título:
    A Module for Analyzing Interactomes via APEX-MS Integrated into PatternLab for Proteomics
  • Autor: D. M. Santos, Marlon ; C. Camillo-Andrade, Amanda ; Rodriguez, Azalia ; Durán, Rosario
  • Assuntos: Biotinylation ; Humans ; Mass Spectrometry - methods ; Peptides - analysis ; Peptides - chemistry ; Peptides - metabolism ; Protein Interaction Mapping - methods ; Proteomics - methods ; Software
  • É parte de: Journal of the American Society for Mass Spectrometry, 2024-05, Vol.35 (5), p.1055-1058
  • Notas: ObjectType-Article-1
    SourceType-Scholarly Journals-1
    ObjectType-Feature-2
    content type line 23
  • Descrição: Proximity labeling techniques, such as APEX-MS, provide valuable insights into proximal interactome mapping; however, the verification of biotinylated peptides is not straightforward. With this as motivation, we present a new module integrated into PatternLab for proteomics to enable APEX-MS data interpretation by targeting diagnostic fragment ions associated with APEX modifications. We reanalyzed a previously published APEX-MS data set and report a significant number of biotinylated peptides and, consequently, a confident set of proximal proteins. As the module is part of the widely adopted PatternLab for proteomics software suite, it offers users a comprehensive, easy, and integrated solution for data analysis. Given the broad utility of the APEX-MS technique in various biological contexts, we anticipate that our module will be a valuable asset to researchers, facilitating and enhancing interactome studies. PatternLab’s APEX, including a usage protocol, is available at http://patternlabforproteomics.org/apex.
  • Editor: United States: American Chemical Society
  • Idioma: Inglês
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  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

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