PhenoMapping: A protocol to map cellular phenotypes to metabolic bottlenecks, identify conditional essentiality, and curate metabolic models

STAR Protocols

Vassily Hatzimanikatis¹  Anush Chiappino-Pepe² 

[1] Corresponding author;Laboratory of Computational Systems Biotechnology, École Polytechnique Fédérale de Lausanne, EPFL, Lausanne, Switzerland;

关键词: Bioinformatics;    Metabolism;   

DOI  :  

来源: DOAJ

【 摘 要 】

Summary: Targeted identification of cellular processes responsible for a phenotype is of major importance in guiding efforts in bioengineering and medicine. Genome-scale metabolic models (GEMs) are widely used to integrate various types of omics data and study the cellular physiology under different conditions. Here, we present PhenoMapping, a protocol that uses GEMs, omics, and phenotypic data to map cellular processes and observed phenotypes. PhenoMapping also classifies genes as conditionally and unconditionally essential and guides a comprehensive curation of GEMs.For complete details on the use and execution of this protocol, please refer to Stanway et al. (2019) and Krishnan et al. (2020).

【 授权许可】

Unknown