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Related Concept Videos

Proteomics01:33

Proteomics

9.0K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Related Experiment Video

Updated: Dec 12, 2025

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
07:01

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

591

MASH Explorer: A Universal Software Environment for Top-Down Proteomics.

Zhijie Wu1, David S Roberts1, Jake A Melby1

  • 1Department of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53705, United States.

Journal of Proteome Research
|August 14, 2020
PubMed
Summary
This summary is machine-generated.

A new software, MASH Explorer, offers a universal solution for top-down proteomics analysis. This user-friendly tool integrates multiple algorithms, making complex proteoform analysis accessible to researchers worldwide.

Keywords:
Data Analysis SoftwareIntact Protein AnalysisProteoform CharacterizationTop-down Proteomics

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Area of Science:

  • Proteomics
  • Mass Spectrometry
  • Bioinformatics

Background:

  • Top-down mass spectrometry (MS) provides molecular specificity for proteoform analysis.
  • A universal software solution is lacking, hindering accessibility for top-down proteomics.
  • The growing community requires integrated tools for comprehensive proteome-wide studies.

Purpose of the Study:

  • To develop a universal, user-friendly software environment for top-down proteomics.
  • To integrate diverse spectral deconvolution and database search algorithms into one platform.
  • To address the need for accessible tools in the rapidly expanding top-down proteomics field.

Main Methods:

  • Development of MASH Explorer software.
  • Integration of multiple spectral deconvolution algorithms.
  • Integration of multiple database search algorithms.
  • Support for various vendor data formats.

Main Results:

  • MASH Explorer provides a universal platform for top-down proteomics data processing.
  • The software integrates multiple algorithms for comprehensive analysis.
  • It is the first tool to process top-down proteomics data from various vendor formats.
  • MASH Explorer is freely available to all users globally.

Conclusions:

  • MASH Explorer addresses a critical need in the top-down proteomics community.
  • The software enhances accessibility and comprehensiveness of proteoform analysis.
  • It is expected to significantly advance biomedical research through top-down proteomics.