Dataset Information

Mass Dynamics 1.0: A streamlined, web-based environment for analyzing, sharing and integrating Label-Free Data

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 analyse and visualize LFQ data produced by software such as MaxQuant. Unlike other tools, MD 1.0 utilizes cloud-based architecture to enable researchers to store their data, enabling researchers to not only automatically process and visualize their LFQ data but annotate and share their findings with collaborators and, if chosen, to easily publish results to the community. With a view toward increased reproducibility and standardisation 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.

INSTRUMENT(S): LTQ Orbitrap, Q Exactive

ORGANISM(S): Homo Sapiens (human) Escherichia Coli Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Joseph Bloom

LAB HEAD: Andrew Webb

PROVIDER: PXD028038 | Pride | 2022-04-13

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	130327_o2_01_hu_C1_2hr.raw	Raw
	130327_o2_02_hu_P1_2hr.raw	Raw
	130327_o2_03_hu_C2_2hr.raw	Raw
	130327_o2_04_hu_P2_2hr.raw	Raw
	130327_o2_05_hu_C3_2hr.raw	Raw

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Publications

Mass Dynamics 1.0: A Streamlined, Web-Based Environment for Analyzing, Sharing, and Integrating Label-Free Data.

Bloom Joseph J Triantafyllidis Aaron A Quaglieri Anna A Burton Ngov Paula P Infusini Giuseppe G Webb Andrew A

Journal of proteome research 20211014 11

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 ...[more]

PMID: 34647461

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