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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...
MAPK Signaling Cascades01:07

MAPK Signaling Cascades

Mitogen-activated protein kinase, or MAPK pathway, activates three sequential kinases to regulate cellular responses such as proliferation, differentiation, survival, and apoptosis. The canonical MAPK pathway starts with a mitogen or growth factor binding to an RTK. The activated RTKs stimulate Ras, which recruits Raf or MAP3 Kinase (MAPKKK), the first kinase of the MAPK signaling cascade. Raf further phosphorylates and activates MEK or MAP2 Kinases (MAPKK), which in turn phosphorylates MAP...
Ribosome Profiling02:24

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...

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Related Experiment Video

Updated: Jun 28, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
09:10

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

Published on: May 22, 2018

MAPU 2.0: high-accuracy proteomes mapped to genomes.

Florian Gnad1, Mario Oroshi, Ewan Birney

  • 1Department of Proteomics and Signal Transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

Nucleic Acids Research
|October 25, 2008
PubMed
Summary

The MAPU 2.0 database offers high-accuracy proteomic data for organelles and tissues. It resolves mass spectrometry (MS) challenges and aids genome annotation, enhancing biological research.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Genomics

Background:

  • Existing proteomic databases often lack specificity and high-resolution data.
  • Mass spectrometry (MS)-based proteomics generates complex datasets requiring careful curation.

Purpose of the Study:

  • To introduce MAPU 2.0, a specialized database for high-accuracy proteomic data.
  • To address challenges in MS data analysis, such as peptide-to-protein ambiguity.
  • To facilitate genome annotation using curated proteomic information.

Main Methods:

  • Curated selection of mass spectrometry (MS)-based proteomics experiments.
  • Development of methods to handle ambiguous peptide-to-protein assignments.
  • Integration of Gene Ontology (GO) and SwissProt annotations.
  • Utilizing Distributed Annotation Service (DAS) via EnsEMBL for genome annotation.

Main Results:

  • MAPU 2.0 provides curated proteomes for organelles, tissues, and cell types.
  • The database resolves common MS data interpretation issues.
  • Proteomic data from MAPU 2.0 are used to enhance genome annotations.
  • MAPU 2.0 serves as a model for high-accuracy proteomics databases.

Conclusions:

  • MAPU 2.0 is a valuable resource for high-accuracy proteomics research.
  • The database improves the reliability of proteomic data and its application in genomics.
  • It represents a significant advancement in the management and utilization of MS-based proteomic data.