fulltext.study @t Gmail

A computational framework for integration of lipidomics data into metabolic pathways

Paper ID Volume ID Publish Year Pages File Format Full-Text
31531 44810 2014 8 PDF Available
Title
A computational framework for integration of lipidomics data into metabolic pathways
Abstract

•We developed a method for pathway reconstruction of lipid metabolism from lipidomics data and lipid pathway databases.•The method formulates the generalized enzymatic reaction rules of lipid metabolism.•We identified novel biosynthesis and biodegradation pathways for lipids with known metabolism.•We integrated lipid structures with unknown metabolism into their metabolic and catabolic pathways.

Lipids are important compounds for human physiology and as renewable resources for fuels and chemicals. In lipid research, there is a big gap between the currently available pathway-level representations of lipids and lipid structure databases in which the number of compounds is expanding rapidly with high-throughput mass spectrometry methods.In this work, we introduce a computational approach to bridge this gap by making associations between metabolic pathways and the lipid structures discovered increasingly thorough lipidomics studies. Our approach, called NICELips (Network Integrated Computational Explorer for Lipidomics), is based on the formulation of generalized enzymatic reaction rules for lipid metabolism, and it employs the generalized rules to postulate novel pathways of lipid metabolism. It further integrates all discovered lipids in biological networks of enzymatic reactions that consist their biosynthesis and biodegradation pathways.We illustrate the utility of our approach through a case study of bis(monoacylglycero)phosphate (BMP), a biologically important glycerophospholipid with immature synthesis and catabolic route(s). Using NICELips, we were able to propose various synthesis and degradation pathways for this compound and several other lipids with unknown metabolism like BMP, and in addition several alternative novel biosynthesis and biodegradation pathways for lipids with known metabolism. NICELips has potential applications in designing therapeutic interventions for lipid-associated disorders and in the metabolic engineering of model organisms for improving the biobased production of lipid-derived fuels and chemicals.

Keywords
Phospholipids; Database; Bioinformatics; Bis(monoacylglycero)phosphate (Bmp)
First Page Preview
A computational framework for integration of lipidomics data into metabolic pathways
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us
Publisher
Database: Elsevier - ScienceDirect
Journal: Metabolic Engineering - Volume 23, May 2014, Pages 1–8
Authors
, , , , , , ,
Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us