Hierarchy of metabolic compounds based on their synthesising capacity

T. Handorf, Oliver Ebenhoeh, D. Kahn, R. Heinrich

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

The concept of scopes is applied to analyse large metabolic networks. Scopes are defined as sets of metabolites that can be synthesised by a metabolic network when it is provided with given seeds (Sets of initial metabolic compounds). Thus, scopes represent synthesising capacities of the seeds in the network. A hierarchy is discussed in the sense that compounds, which are part of the scope of another compound, possess scopes themselves that are subsets of the former scope. This hierarchy is analysed by means of a directed acyclic graph. Using a simple chemical model, it is found that this hierarchy contains specific structures that can, to a large extent, be explained by the chemical composition of the participating compounds. In this way, it represents a new kind of map of metabolic networks, arranging the metabolic compounds according to their chemical capacity.
Original languageEnglish
Pages (from-to)359-363
Number of pages5
JournalIEE Proceedings. Systems Biology
Volume153
Issue number5
Publication statusPublished - 1 Sep 2006

Fingerprint

Metabolic Network
Metabolic Networks and Pathways
Seed
Seeds
Chemical Models
Metabolites
Subset
Chemical analysis
Hierarchy
Model

Keywords

  • Algorithms
  • Cell Physiology
  • Computer Graphics
  • Computer Simulation
  • Inorganic Chemicals
  • Metabolism
  • Models, Biological
  • Models, Chemical
  • Organic Chemicals
  • Proteins
  • Signal Transduction
  • User-Computer Interface

Cite this

Handorf, T., Ebenhoeh, O., Kahn, D., & Heinrich, R. (2006). Hierarchy of metabolic compounds based on their synthesising capacity. IEE Proceedings. Systems Biology, 153(5), 359-363.

Hierarchy of metabolic compounds based on their synthesising capacity. / Handorf, T.; Ebenhoeh, Oliver; Kahn, D.; Heinrich, R.

In: IEE Proceedings. Systems Biology, Vol. 153, No. 5, 01.09.2006, p. 359-363.

Research output: Contribution to journalArticle

Handorf, T, Ebenhoeh, O, Kahn, D & Heinrich, R 2006, 'Hierarchy of metabolic compounds based on their synthesising capacity', IEE Proceedings. Systems Biology, vol. 153, no. 5, pp. 359-363.
Handorf T, Ebenhoeh O, Kahn D, Heinrich R. Hierarchy of metabolic compounds based on their synthesising capacity. IEE Proceedings. Systems Biology. 2006 Sep 1;153(5):359-363.
Handorf, T. ; Ebenhoeh, Oliver ; Kahn, D. ; Heinrich, R. / Hierarchy of metabolic compounds based on their synthesising capacity. In: IEE Proceedings. Systems Biology. 2006 ; Vol. 153, No. 5. pp. 359-363.
@article{20a2108b09f34e748003f3d4eaf19f43,
title = "Hierarchy of metabolic compounds based on their synthesising capacity",
abstract = "The concept of scopes is applied to analyse large metabolic networks. Scopes are defined as sets of metabolites that can be synthesised by a metabolic network when it is provided with given seeds (Sets of initial metabolic compounds). Thus, scopes represent synthesising capacities of the seeds in the network. A hierarchy is discussed in the sense that compounds, which are part of the scope of another compound, possess scopes themselves that are subsets of the former scope. This hierarchy is analysed by means of a directed acyclic graph. Using a simple chemical model, it is found that this hierarchy contains specific structures that can, to a large extent, be explained by the chemical composition of the participating compounds. In this way, it represents a new kind of map of metabolic networks, arranging the metabolic compounds according to their chemical capacity.",
keywords = "Algorithms, Cell Physiology, Computer Graphics, Computer Simulation, Inorganic Chemicals, Metabolism, Models, Biological, Models, Chemical, Organic Chemicals, Proteins, Signal Transduction, User-Computer Interface",
author = "T. Handorf and Oliver Ebenhoeh and D. Kahn and R. Heinrich",
year = "2006",
month = "9",
day = "1",
language = "English",
volume = "153",
pages = "359--363",
journal = "IEE Proceedings. Systems Biology",
issn = "1741-2471",
publisher = "Institution of Engineering and Technology",
number = "5",

}

TY - JOUR

T1 - Hierarchy of metabolic compounds based on their synthesising capacity

AU - Handorf, T.

AU - Ebenhoeh, Oliver

AU - Kahn, D.

AU - Heinrich, R.

PY - 2006/9/1

Y1 - 2006/9/1

N2 - The concept of scopes is applied to analyse large metabolic networks. Scopes are defined as sets of metabolites that can be synthesised by a metabolic network when it is provided with given seeds (Sets of initial metabolic compounds). Thus, scopes represent synthesising capacities of the seeds in the network. A hierarchy is discussed in the sense that compounds, which are part of the scope of another compound, possess scopes themselves that are subsets of the former scope. This hierarchy is analysed by means of a directed acyclic graph. Using a simple chemical model, it is found that this hierarchy contains specific structures that can, to a large extent, be explained by the chemical composition of the participating compounds. In this way, it represents a new kind of map of metabolic networks, arranging the metabolic compounds according to their chemical capacity.

AB - The concept of scopes is applied to analyse large metabolic networks. Scopes are defined as sets of metabolites that can be synthesised by a metabolic network when it is provided with given seeds (Sets of initial metabolic compounds). Thus, scopes represent synthesising capacities of the seeds in the network. A hierarchy is discussed in the sense that compounds, which are part of the scope of another compound, possess scopes themselves that are subsets of the former scope. This hierarchy is analysed by means of a directed acyclic graph. Using a simple chemical model, it is found that this hierarchy contains specific structures that can, to a large extent, be explained by the chemical composition of the participating compounds. In this way, it represents a new kind of map of metabolic networks, arranging the metabolic compounds according to their chemical capacity.

KW - Algorithms

KW - Cell Physiology

KW - Computer Graphics

KW - Computer Simulation

KW - Inorganic Chemicals

KW - Metabolism

KW - Models, Biological

KW - Models, Chemical

KW - Organic Chemicals

KW - Proteins

KW - Signal Transduction

KW - User-Computer Interface

M3 - Article

VL - 153

SP - 359

EP - 363

JO - IEE Proceedings. Systems Biology

JF - IEE Proceedings. Systems Biology

SN - 1741-2471

IS - 5

ER -