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Showing results 1 to 4 of 4
  • OER000002397.pdf.jpg
  • Journal Article

  • Centrifugal Gel Crushing for Gel-based Proteome Analysis

    • Authors : Nishida, Hiroshi (2023)

  • We have developed a centrifugal gel crushing method using a pipette tip. Polyacrylamide gel slices are extruded from the narrowing cavity of a pipette tip by centrifugation in a few minutes to crush them into pieces of appropriate size. The size of the crushed gel could be controlled by several parameters, including centrifugal force and pipette tip cavity. In shotgun proteomics, gel-based LC/MS/MS, so-called GeLC/MS/MS, involves the ...
  • OER000000882.pdf.jpg
  • Journal article

  • Comparison of protein and peptide fractionation approaches in protein identification and quantification from Saccharomyces cerevisiae

    • Authors : Deng, Liting; Handler, David C. L; Multari, Dylan (2020)

  • Proteomics, as a high-throughput technology, has been developed with the aim of investigating the maximum number of proteins in cells. However, protein discovery and data generation vary in depth and coverage when different technical strategies are used. In this study, four different sample preparation, and peptide or protein fractionation, methods were applied to identify and quantify proteins from log-phase yeast lysate: sodium dodecyl sulfate-polyacrylamide gel ...
  • OER000002950.pdf.jpg
  • Journal article

  • CsoDIAq Software for Direct Infusion Shotgun Proteome Analysis (DISPA)

    • Authors : Cranney, Caleb W. (2023)

  • New mass spectrometry data collection methods require new computational tools. Direct Infusion Shotgun Proteome Analysis (DISPA) is a new paradigm for expedited mass spectrometry-based proteomics, but the original data analysis workflow was onerous. Here we introduce CsoDIAq, a user-friendly software package for the identification and quantification of peptides and proteins from DISPA data. In addition to establishing a complete and automated analysis workflow with a&#...
  • OER000000867.pdf.jpg
  • Journal article

  • Revealing dynamic protein acetylation across subcellular compartments

    • Authors : Baeza, Josue; Lawton, Alexis J; Fan, Jing (2020)

  • Protein acetylation is a widespread post-translational modification implicated in many cellular processes. Recent advances in mass spectrometry have enabled the cataloging of thousands of sites throughout the cell, however identifying regulatory acetylation marks have proven to be a daunting task. Knowledge of the kinetics and stoichiometry of site-specific acetylation are important factors to uncover function. Here, an improved method of quantifying acetylation stoichiometry&#x...