Methods for integration of transcriptomic data in genome-scale metabolic models

Computational and Structural Biotechnology Journal

Desmond S. Lun¹  Min Kyung Kim¹ 

[1] Center for Computational and Integrative Biology, Rutgers University, Camden, NJ 08102, USA;

关键词: Flux balance analysis;    Contraint-based model;    Omics;   

DOI  :  10.1016/j.csbj.2014.08.009

来源: DOAJ

【 摘 要 】

Several computational methods have been developed that integrate transcriptomic data with genome-scale metabolic reconstructions to infer condition-specific system-wide intracellular metabolic flux distributions. In this mini-review, we describe each of these methods published to date with categorizing them based on four different grouping criteria (requirement for multiple gene expression datasets as input, requirement for a threshold to define a gene's high and low expression, requirement for a priori assumption of an appropriate objective function, and validation of predicted fluxes directly against measured intracellular fluxes). Then, we recommend which group of methods would be more suitable from a practical perspective.

【 授权许可】

Unknown