Open AccessMASH Explorer: A Universal Software Environment for Top-Down Proteomics
Author(s) -
Zhijie Wu,
David S. Roberts,
Jake A. Melby,
Kent Wenger,
Molly Wetzel,
Yiwen Gu,
Sudharshanan Govindaraj Ramanathan,
Elizabeth F. Bayne,
Xiaowen Liu,
Rui-Xiang Sun,
Irene M. Ong,
Sean McIlwain,
Ying Ge
Publication year - 2020
Publication title -
journal of proteome research
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.644
H-Index - 161
eISSN - 1535-3907
pISSN - 1535-3893
DOI - 10.1021/acs.jproteome.0c00469
Subject(s) - proteomics , computer science , software , vendor , process (computing) , data science , biology , operating system , gene , biochemistry , marketing , business
Top-down mass spectrometry (MS)-based proteomics enable a comprehensive analysis of proteoforms with molecular specificity to achieve a proteome-wide understanding of protein functions. However, the lack of a universal software for top-down proteomics is becoming increasingly recognized as a major barrier, especially for newcomers. Here, we have developed MASH Explorer, a universal, comprehensive, and user-friendly software environment for top-down proteomics. MASH Explorer integrates multiple spectral deconvolution and database search algorithms into a single, universal platform which can process top-down proteomics data from various vendor formats, for the first time. It addresses the urgent need in the rapidly growing top-down proteomics community and is freely available to all users worldwide. With the critical need and tremendous support from the community, we envision that this MASH Explorer software package will play an integral role in advancing top-down proteomics to realize its full potential for biomedical research.