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Related Concept Videos

Proteomics01:33

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...
Rapid Identification of Pathogens01:25

Rapid Identification of Pathogens

MALDI-TOF MS has transformed clinical microbiology by offering a rapid and reliable method for pathogen identification. The traditional approach to microbial identification typically involves time-consuming culture techniques and biochemical tests, which can delay the initiation of appropriate antimicrobial therapy. MALDI-TOF MS avoids these delays by using characteristic ribosomal protein mass patterns of microbial cells, enabling accurate species-level identification within minutes.Principle...
MALDI-TOF Mass Spectrometry01:19

MALDI-TOF Mass Spectrometry

Mass spectrometry is a powerful characterization technique that can identify and separate a wide variety of compounds ranging from chemical to biological entities, based on their mass-to-charge ratio (m/z). The instruments that allow this detection, known as mass spectrometers, have three components: an ion source, a mass analyzer, and a detector. These spectrometers differ based on the nature of their ion source and analyzers.Matrix-assisted laser desorption ionization (MALDI) is a commonly...

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Related Experiment Video

Updated: Jun 17, 2026

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
07:01

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

Published on: August 19, 2025

ms_lims, a simple yet powerful open source laboratory information management system for MS-driven proteomics.

Kenny Helsens1, Niklaas Colaert, Harald Barsnes

  • 1Department of Medical Protein Research, VIB, Ghent, Belgium.

Proteomics
|January 9, 2010
PubMed
Summary

This study introduces ms_lims, an open-source system for automating data management and processing in mass spectrometry (MS)-driven proteomics. It facilitates high-throughput analysis by managing large datasets and associated results efficiently.

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Area of Science:

  • Proteomics
  • Mass Spectrometry
  • Bioinformatics

Background:

  • Mass spectrometry (MS)-based proteomics generates vast amounts of mass spectral data.
  • Processing, identification, and quantification are crucial but time-consuming steps.
  • High-throughput studies necessitate automated solutions for data management and analysis.

Purpose of the Study:

  • To present ms_lims, a freely available, open-source system.
  • To automate data management and processing in MS-driven proteomics.
  • To facilitate efficient handling of large datasets in high-throughput proteomics.

Main Methods:

  • Development of a central database system.
  • Implementation of automated workflows for data processing.
  • Integration of data management with experimental results.

Main Results:

  • ms_lims provides a centralized platform for MS-based proteomics data.
  • The system automates critical steps like data processing and management.
  • It supports high-throughput studies by streamlining the analysis pipeline.

Conclusions:

  • ms_lims offers a robust solution for managing and processing MS-based proteomics data.
  • The open-source system enhances efficiency and reproducibility in proteomics research.
  • Automation through ms_lims is key for advancing high-throughput proteomic studies.