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Proteomics

Proteomics

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...

Protein Folding Quality Check in the RER

Protein Folding Quality Check in the RER

ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...

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Related Experiment Video

Updated: Apr 21, 2026

RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

RNA-seq Analysis of Transcriptomes in Thrombin-treated and Control Human Pulmonary Microvascular Endothelial Cells

Published on: February 13, 2013

A proteome quality index.

Jan Zaucha¹, Jonathan Stahlhacke, Matt E Oates

¹Department of Computer Science, University of Bristol, Bristol, UK; Bristol Centre for Complexity Sciences, University of Bristol, Bristol, UK.

Environmental Microbiology

|October 24, 2014

Summary

This summary is machine-generated.

The Proteome Quality Index (PQI) rates bacterial and eukaryotic proteomes using 11 metrics, providing a crucial resource for researchers. This quality assessment helps standardize proteome data, improving the reliability of scientific studies.

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Area of Science:

Proteomics
Bioinformatics
Genomics

Background:

Thousands of bacterial and eukaryotic proteomes are available.
Significant variability exists in the quality of these proteomes.
No systematic method previously existed to assess proteome quality.

Purpose of the Study:

To introduce the Proteome Quality Index (PQI) as a standardized resource.
To address the lack of quality assessment for proteomic datasets.
To improve the reliability of large-scale comparative analyses in proteomics.

Main Methods:

Developed a rating system using 11 distinct quality metrics.
Integrated multiple metrics to overcome the difficulty of single-measure assessment.
Created a website for browsing, filtering, and downloading proteome data.

Main Results:

The PQI database currently indexes over 3000 proteomes.
Each proteome is assigned a one- to five-star quality rating.
The PQI provides a systematic approach to evaluating proteome quality.

Conclusions:

The PQI is a valuable resource for the scientific community.
It serves as a critical first step towards establishing a standard for proteome quality.
Continued development and community contribution are essential for future improvements.