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 proteomics...

You might also read

Related Articles

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

Sort by

Same author

Instrument-Software Synergy in Proteomics: Systematic Evaluation across Mass Spectrometry Platforms, Search Engines, and Rescoring Methods.

Journal of proteome research·2026

Same author

InstaNovo-P: a de novo peptide sequencing model for phosphoproteomics.

Nature communications·2026

Same author

omicsGMF: a multi-tool for dimensionality reduction, batch correction and imputation in bulk- and single-cell proteomics.

Nature communications·2026

Same author

Decline of Common Toad Populations in Flanders Is Not Linked to Surrounding Landscape.

Ecology and evolution·2026

Same author

Variant Curation of the Largest Compendium of <i>FOXL2</i> Coding and Noncoding Sequence and Structural Variants in BPES.

Human mutation·2026

Same author

Stochastic gradient descent estimation of generalized matrix factorization models with application to single-cell RNA sequencing data.

Biostatistics (Oxford, England)·2026

Search research articles

Related Experiment Video

Updated: Jun 6, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

omicsGMF: a multi-tool for dimensionality reduction, batch correction and imputation applied to bulk- and single cell

Alexandre Segers^1,2, Cristian Castiglione³, Christophe Vanderaa¹

¹Department of Applied Mathematics, Computer Science and Statistics, Ghent University. Ghent, Belgium.

Biorxiv : the Preprint Server for Biology

|April 8, 2025

Summary

omicsGMF is a new matrix factorization tool that improves proteomics data analysis by integrating imputation, batch correction, and dimensionality reduction for faster, more accurate results in bulk and single-cell proteomics.

More Related Videos

Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

Published on: July 27, 2021

Author Spotlight: Integrated Multi-Omics Analysis for Unveiling Multicellular Immune Signatures in Clinical Heart Attack Cohorts

Author Spotlight: Integrated Multi-Omics Analysis for Unveiling Multicellular Immune Signatures in Clinical Heart Attack Cohorts

Published on: September 20, 2024

Related Experiment Videos

Last Updated: Jun 6, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Published on: May 22, 2018

Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

Large-Scale Multi-Omics Genome-Wide Association Studies Mo-GWAS: Guidelines for Sample Preparation and Normalization

Published on: July 27, 2021

Author Spotlight: Integrated Multi-Omics Analysis for Unveiling Multicellular Immune Signatures in Clinical Heart Attack Cohorts

Author Spotlight: Integrated Multi-Omics Analysis for Unveiling Multicellular Immune Signatures in Clinical Heart Attack Cohorts

Published on: September 20, 2024

Area of Science:

Proteomics
Bioinformatics
Computational Biology

Background:

Mass spectrometry (MS) enables large-scale proteomics but faces challenges with batch effects and missing data.
Current workflows involve sequential, less efficient data processing steps.

Purpose of the Study:

Introduce omicsGMF, a scalable matrix factorization method for proteomics data.
Address limitations in dimensionality reduction, batch correction, and imputation for MS data.

Main Methods:

Developed omicsGMF, a unified framework integrating imputation, batch correction, and principal component analysis.
Applied omicsGMF to bulk and single-cell proteomics datasets.

Main Results:

omicsGMF offers fast, scalable, and interpretable dimensionality reduction.
Demonstrated superior performance in imputing missing values compared to existing tools.
Showcased enhanced statistical power for detecting differentially abundant proteins.

Conclusions:

omicsGMF significantly improves proteomics data processing and analysis.
Provides a scalable solution for dimensionality reduction in large-scale proteomics studies.