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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...
Subcellular Fractionation01:32

Subcellular Fractionation

The homogenate obtained after cell lysis contains various membrane-bound organelles that can be further separated into pure fractions by subcellular fractionation. These isolates are used to study specific cellular components, analyze localized protein activity, and are even employed in diagnostics. Fractionation is typically achieved using centrifugation methods, the most common being density-gradient and differential centrifugation.
Differential Centrifugation
Differential centrifugation is...
Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...

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Related Experiment Video

Updated: May 15, 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

ProteoCloud: a full-featured open source proteomics cloud computing pipeline.

Thilo Muth1, Julian Peters, Jonathan Blackburn

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

Journal of Proteomics
|January 12, 2013
PubMed
Summary
This summary is machine-generated.

ProteoCloud is an open-source, cloud-based platform for peptide identification. It uses five algorithms for exhaustive searches, offering users control and detailed results visualization.

Keywords:
BioinformaticsCloud computingMSMS/MSMass spectrometryProteomicsSearch algorithmsmass spectrometrytandem mass spectrometry

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Computational Biology

Background:

  • Peptide identification is crucial for protein analysis.
  • Computationally intensive searches require robust platforms.
  • Existing tools may lack comprehensive features or cloud integration.

Purpose of the Study:

  • To introduce ProteoCloud, a cloud-based platform for peptide identification.
  • To provide a user-friendly, open-source solution for complex proteomic data analysis.
  • To enable exhaustive searches using multiple algorithms.

Main Methods:

  • Development of a cloud-based platform, ProteoCloud.
  • Integration of five distinct peptide identification algorithms.
  • Creation of a cross-platform graphical user interface (GUI) client.

Main Results:

  • ProteoCloud enables computationally intensive, exhaustive peptide searches.
  • The platform offers user control over cloud instances and spectral assignment.
  • Detailed progress tracking and results visualization are provided.

Conclusions:

  • ProteoCloud is a versatile, freely available tool for proteomic data analysis.
  • The platform simplifies complex peptide identification workflows.
  • Open-source accessibility promotes wider adoption and collaboration.