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MS1-Based Data Analysis Approaches for FFPE Tissue Imaging of Endogenous Peptide Ions by Mass Spectrometry Histochemistry (MSHC).
Bhattacharya, Nivedita; Nagornov, Konstantin; Verheggen, Kenneth; Verhaert, Marthe; Sciot, Raf; Verhaert, Peter.
Afiliación
  • Bhattacharya N; ProteoFormiX, Beerse, Belgium.
  • Nagornov K; MassTech Inc., Columbia, MD, USA.
  • Verheggen K; Spectroswiss, Lausanne, Switzerland.
  • Verhaert M; ProteoFormiX, Beerse, Belgium.
  • Sciot R; ProteoFormiX, Beerse, Belgium.
  • Verhaert P; Department of Medical Oncology at Institute Jules Bordet, Brussels, Belgium.
Methods Mol Biol ; 2688: 187-202, 2023.
Article en En | MEDLINE | ID: mdl-37410294
Ambiguous reports in the literature exist regarding the use and usefulness of formalin-fixed paraffin-embedded (FFPE) tissues in mass spectrometry imaging (MSI). Especially for the study of endogenous (non-tryptic) peptides, several studies have concluded that MSI on archived FFPE tissue bank samples is virtually impossible. We here illustrate that by employing a variant of MSI, called mass spectrometry histochemistry (MSHC), biomolecular tissue localization data are obtained that unequivocally comprise endogenous peptides. We here discuss different informatics steps in a data analysis workflow to help filter peptide-related features out of large and complex datasets generated by atmospheric pressure matrix-assisted laser desorption/ionization high-resolution (Orbitrap mass analyzer) MSHC. These include, in addition to accurate mass measurements, Kendrick mass defect filtering and isotopic distribution scrutiny.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Péptidos / Diagnóstico por Imagen Tipo de estudio: Diagnostic_studies Idioma: En Revista: Methods Mol Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2023 Tipo del documento: Article País de afiliación: Bélgica Pais de publicación: Estados Unidos
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Péptidos / Diagnóstico por Imagen Tipo de estudio: Diagnostic_studies Idioma: En Revista: Methods Mol Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2023 Tipo del documento: Article País de afiliación: Bélgica Pais de publicación: Estados Unidos