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Related Concept Videos

Protein Networks02:26

Protein Networks

An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...

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CorrelationCalculator and Filigree: Tools for Data-Driven Network Analysis of Metabolomics Data
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MetNetAligner: a web service tool for metabolic network alignments.

Qiong Cheng1, Robert Harrison, Alexander Zelikovsky

  • 1Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA.

Bioinformatics (Oxford, England)
|May 6, 2009
PubMed
Summary

MetNetAligner aligns metabolic networks using enzyme function and network topology to identify inconsistencies and predict pathways. This tool aids in comparing networks and resolving enzyme identification ambiguities.

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A Web Tool for Generating High Quality Machine-readable Biological Pathways
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Area of Science:

  • Computational biology
  • Bioinformatics
  • Systems biology

Background:

  • High-throughput genomic, proteomic, and metabolomic data enable advanced metabolic network modeling.
  • Metabolic network alignment is crucial for identifying model inconsistencies and inferring missing components.

Purpose of the Study:

  • To introduce MetNetAligner, a web service for aligning metabolic networks.
  • To facilitate the prediction of unknown pathways and the identification of conserved patterns.
  • To assist in resolving ambiguous enzyme identifications.

Main Methods:

  • MetNetAligner aligns metabolic networks based on topological similarity and enzyme functional similarity.
  • The tool employs a novel scoring scheme for enzyme-to-enzyme functional similarity.
  • A fast algorithm efficiently maps directed graphs, supporting options for enzyme deletion and insertion.

Main Results:

  • MetNetAligner provides a method for comparing reconstructed metabolic networks.
  • The alignment process helps in detecting inconsistencies within metabolic models.
  • The tool aids in the prediction of novel metabolic pathways and enzyme functions.

Conclusions:

  • MetNetAligner is a valuable web service for analyzing and comparing metabolic networks.
  • The tool enhances the accuracy of metabolic network reconstruction and analysis.
  • It supports various alignment options, offering flexibility in network comparison.