Bioinformatics and computational methods for lipidomics

Perttu Niemelä, Sandra Castillo, Marko Sysi-Aho, Matej Orešič (Corresponding Author)

Research output: Contribution to journalReview ArticleScientificpeer-review

56 Citations (Scopus)

Abstract

Large amounts of lipidomics data are rapidly becoming available. However, there is a lack of tools capable of taking the full advantage of the wealth of new information. Lipid bioinformatics is thus an emerging need as well as challenge for lipid research. Lipid concentration changes in biological systems reflect regulation at multiple spatial and dynamic scales, e.g., biochemical reactions in the cells, intercellular lipid trafficking, changes in cell membrane composition, systemic lipid metabolism or lipid oxidation. In order to address the complexity of lipids and their regulation, four areas of bioinformatics need to be developed: (1) data processing and lipid identification, (2) statistical data analysis, (3) pathway analysis, and (4) lipid modeling in systems and biophysical contexts. In this paper we overview the current state of the lipid bioinformatics field as well as suggest few potential new areas of research.

Original languageEnglish
Pages (from-to)2855-2862
Number of pages8
JournalJournal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences
Volume877
Issue number26
DOIs
Publication statusPublished - 2009
MoE publication typeA2 Review article in a scientific journal

Fingerprint

Bioinformatics
Computational methods
Lipids
Bioelectric potentials
Biological systems
Cell membranes
Oxidation
Chemical analysis

Keywords

  • Bioinformatics
  • Biological membrane
  • Lipid metabolism
  • Lipidomics
  • Liquid chromatography
  • Mass spectrometry
  • Metabolic pathways
  • Stable isotope tracers
  • Systems biology

Cite this

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title = "Bioinformatics and computational methods for lipidomics",
abstract = "Large amounts of lipidomics data are rapidly becoming available. However, there is a lack of tools capable of taking the full advantage of the wealth of new information. Lipid bioinformatics is thus an emerging need as well as challenge for lipid research. Lipid concentration changes in biological systems reflect regulation at multiple spatial and dynamic scales, e.g., biochemical reactions in the cells, intercellular lipid trafficking, changes in cell membrane composition, systemic lipid metabolism or lipid oxidation. In order to address the complexity of lipids and their regulation, four areas of bioinformatics need to be developed: (1) data processing and lipid identification, (2) statistical data analysis, (3) pathway analysis, and (4) lipid modeling in systems and biophysical contexts. In this paper we overview the current state of the lipid bioinformatics field as well as suggest few potential new areas of research.",
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Bioinformatics and computational methods for lipidomics. / Niemelä, Perttu; Castillo, Sandra; Sysi-Aho, Marko; Orešič, Matej (Corresponding Author).

In: Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences, Vol. 877, No. 26, 2009, p. 2855-2862.

Research output: Contribution to journalReview ArticleScientificpeer-review

TY - JOUR

T1 - Bioinformatics and computational methods for lipidomics

AU - Niemelä, Perttu

AU - Castillo, Sandra

AU - Sysi-Aho, Marko

AU - Orešič, Matej

PY - 2009

Y1 - 2009

N2 - Large amounts of lipidomics data are rapidly becoming available. However, there is a lack of tools capable of taking the full advantage of the wealth of new information. Lipid bioinformatics is thus an emerging need as well as challenge for lipid research. Lipid concentration changes in biological systems reflect regulation at multiple spatial and dynamic scales, e.g., biochemical reactions in the cells, intercellular lipid trafficking, changes in cell membrane composition, systemic lipid metabolism or lipid oxidation. In order to address the complexity of lipids and their regulation, four areas of bioinformatics need to be developed: (1) data processing and lipid identification, (2) statistical data analysis, (3) pathway analysis, and (4) lipid modeling in systems and biophysical contexts. In this paper we overview the current state of the lipid bioinformatics field as well as suggest few potential new areas of research.

AB - Large amounts of lipidomics data are rapidly becoming available. However, there is a lack of tools capable of taking the full advantage of the wealth of new information. Lipid bioinformatics is thus an emerging need as well as challenge for lipid research. Lipid concentration changes in biological systems reflect regulation at multiple spatial and dynamic scales, e.g., biochemical reactions in the cells, intercellular lipid trafficking, changes in cell membrane composition, systemic lipid metabolism or lipid oxidation. In order to address the complexity of lipids and their regulation, four areas of bioinformatics need to be developed: (1) data processing and lipid identification, (2) statistical data analysis, (3) pathway analysis, and (4) lipid modeling in systems and biophysical contexts. In this paper we overview the current state of the lipid bioinformatics field as well as suggest few potential new areas of research.

KW - Bioinformatics

KW - Biological membrane

KW - Lipid metabolism

KW - Lipidomics

KW - Liquid chromatography

KW - Mass spectrometry

KW - Metabolic pathways

KW - Stable isotope tracers

KW - Systems biology

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DO - 10.1016/j.jchromb.2009.01.025

M3 - Review Article

VL - 877

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JO - Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences

JF - Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences

SN - 1570-0232

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