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Related Experiment Video

Updated: Oct 3, 2025

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

Probing Protein Solubility Patterns with Proteomics for Insight into Network Dynamics.

Xiaojing Sui¹, Mona Radwan², Dezerae Cox²

¹Department of Molecular Biosciences, Rice Institute for Biomedical Research, Northwestern University, Evanston, IL, USA.

Methods in Molecular Biology (Clifton, N.J.)

|February 16, 2022

Summary

This summary is machine-generated.

We developed a simple ultracentrifugation method to analyze proteome solubility, revealing insights into cellular network rewiring. This technique aids in understanding protein aggregation in neurodegenerative diseases.

Keywords:

Bioinformatics Protein aggregate Proteomics Pulse shape analysis (PulSA)Solubility Ultracentrifugation

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Last Updated: Oct 3, 2025

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Area of Science:

Cellular Biology
Biochemistry
Neuroscience

Background:

Proteome solubility reflects protein interaction networks and cellular network rewiring.
Changes in protein solubility are linked to protein misfolding and aggregation in neurodegenerative diseases.

Purpose of the Study:

To develop a simple method for separating soluble and insoluble proteome fractions.
To analyze changes in proteome solubility using quantitative proteomics and bioinformatics.
To provide a complementary approach for studying protein aggregates in neurodegenerative diseases.

Main Methods:

A one-step ultracentrifugation technique to fractionate the proteome.
Quantitative proteomics for analyzing proteome changes.
Bioinformatics strategies for data analysis.
Pulse shape analysis (PulSA) by flow cytometry for isolating protein aggregates.

Main Results:

The study established a straightforward ultracentrifugation method for proteome fractionation.
The integrated approach allows for the analysis of proteome solubility changes.
PulSA offers a complementary method for studying disease-associated protein aggregates.

Conclusions:

The developed method provides a valuable tool for investigating cellular network dynamics through proteome solubility.
This approach can be applied to understand mechanisms underlying neurodegenerative disorders.
Combining solubility analysis with aggregate isolation offers a comprehensive strategy for disease research.