Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

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...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Microbial consortia mediating lignocellulose turnover and denitrification in eutrophic lake sediment enrichments.

mSystems·2026

Same author

Comparative Evaluation of DDA- and DIA-Based Proteomic Workflows in Beryllium-Related Lung Disease.

bioRxiv : the preprint server for biology·2026

Same author

Molecular characterisation of progressive pulmonary sarcoidosis: protocol for a longitudinal multi-centre study to develop peripheral blood circulating biomarkers for predicting pulmonary sarcoidosis progression.

BMJ open·2026

Same author

Meta-omics profiling of denitrifying bacterial communities with lignin as carbon source.

Microbiological research·2026

Same author

A dihydrouracil CRBN ligand mitigates IMiD associated safety liabilities in heterobifunctional targeted protein degrader.

Nature communications·2026

Same author

Optical and acoustic scattering in cutaneous neurofibromas: Implications for early detection.

The Journal of investigative dermatology·2026

Search research articles

Related Experiment Video

Updated: Nov 14, 2025

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures

Published on: September 28, 2013

Updates on metaQuantome Software for Quantitative Metaproteomics.

Subina Mehta¹, Praveen Kumar¹, Marie Crane¹

¹Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota Twin Cities, Minneapolis, Minnesota 55455, United States.

Journal of Proteome Research

|March 8, 2021

Summary

The updated metaQuantome software now supports multi-omics analysis, including metatranscriptomics, and enables multi-data-point statistical analysis for complex microbiome studies.

Keywords:

bioinformatics software functional inference mass spectrometry metaproteomics metatranscriptomics microbiome multiomics quantification time course training

More Related Videos

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

Related Experiment Videos

Last Updated: Nov 14, 2025

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures

Metabolic Labeling and Membrane Fractionation for Comparative Proteomic Analysis of Arabidopsis thaliana Suspension Cell Cultures

Published on: September 28, 2013

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease

Published on: January 10, 2025

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools

Published on: August 19, 2025

Area of Science:

Microbiology
Bioinformatics
Computational Biology

Background:

Quantitative analysis of metaproteomics data is crucial for understanding microbial communities.
Existing tools often lack comprehensive multi-omics integration and multi-point statistical capabilities.

Purpose of the Study:

To enhance metaQuantome for quantitative metaproteomics and metatranscriptomics analysis.
To enable multi-data-point statistical analysis for complex biological studies.
To facilitate integrative multi-omics microbiome analysis.

Main Methods:

Updated metaQuantome software with a training guide and multi-condition analysis.
Developed MT2MQ tool for transforming metatranscriptomics data for metaQuantome input.
Applied metaQuantome tools to metatranscriptomics data, complementing metagenomic and metaproteomic analyses.

Main Results:

metaQuantome now supports quantitative analysis of metatranscriptomics data.
Multi-data-point statistical analysis is enabled for time-course and multi-condition studies.
Improved visualization and statistical tools are available for multi-omics data.

Conclusions:

The enhanced metaQuantome and MT2MQ facilitate quantitative metaproteomics and metatranscriptomics.
These tools advance integrative multi-omics microbiome analysis for understanding dynamic microbial responses.
Open-source availability promotes wider adoption and research in microbial community dynamics.