Mass Dynamics 1.0: A streamlined, web-based environment for analyzing, sharing, and integrating label-free data
Journal Title
Journal of Proteome Research
Publication Type
epub ahead of print
Abstract
Label-free quantification (LFQ) of shotgun proteomics data is a popular and robust method for the characterization of relative protein abundance between samples. Many analytical pipelines exist for the automation of this analysis, and some tools exist for the subsequent representation and inspection of the results of these pipelines. Mass Dynamics 1.0 (MD 1.0) is a web-based analysis environment that can analyze and visualize LFQ data produced by software such as MaxQuant. Unlike other tools, MD 1.0 utilizes a cloud-based architecture to enable researchers to store their data, enabling researchers to not only automatically process and visualize their LFQ data but also annotate and share their findings with collaborators and, if chosen, to easily publish results to the community. With a view toward increased reproducibility and standardization in proteomics data analysis and streamlining collaboration between researchers, MD 1.0 requires minimal parameter choices and automatically generates quality control reports to verify experiment integrity. Here, we demonstrate that MD 1.0 provides reliable results for protein expression quantification, emulating Perseus on benchmark datasets over a wide dynamic range. The MD 1.0 platform is available globally via: https://app.massdynamics.com/.
Publisher
ACS
Keywords
MaxQuant; automated data analysis; benchmarking; label-free quantification; web-based software tool
WEHI Research Division(s)
Advanced Technology And Biology
PubMed ID
34647461
Rights Notice
Refer to copyright notice on published article.


Creation Date: 2021-10-26 10:03:37
Last Modified: 2021-10-26 10:07:08
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